Human Gene UBE2I (ENST00000397514.8_6) from GENCODE V47lift37
  Description: ubiquitin conjugating enzyme E2 I, transcript variant 1 (from RefSeq NM_003345.5)
Gencode Transcript: ENST00000397514.8_6
Gencode Gene: ENSG00000103275.22_13
Transcript (Including UTRs)
   Position: hg19 chr16:1,359,637-1,377,018 Size: 17,382 Total Exon Count: 7 Strand: +
Coding Region
   Position: hg19 chr16:1,364,032-1,374,794 Size: 10,763 Coding Exon Count: 6 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr16:1,359,637-1,377,018)mRNA (may differ from genome)Protein (158 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsHGNC
MalacardsMGIOMIMPubMedReactomeUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: UBC9_HUMAN
DESCRIPTION: RecName: Full=SUMO-conjugating enzyme UBC9; EC=6.3.2.-; AltName: Full=SUMO-protein ligase; AltName: Full=Ubiquitin carrier protein 9; AltName: Full=Ubiquitin carrier protein I; AltName: Full=Ubiquitin-conjugating enzyme E2 I; AltName: Full=Ubiquitin-protein ligase I; AltName: Full=p18;
FUNCTION: Accepts the ubiquitin-like proteins SUMO1, SUMO2, SUMO3 and SUMO4 from the UBLE1A-UBLE1B E1 complex and catalyzes their covalent attachment to other proteins with the help of an E3 ligase such as RANBP2 or CBX4. Can catalyze the formation of poly- SUMO chains. Necessary for sumoylation of FOXL2 and KAT5. Essential for nuclear architecture and chromosome segregation.
CATALYTIC ACTIVITY: ATP + SUMO + protein lysine = AMP + diphosphate + protein N-SUMOyllysine.
PATHWAY: Protein modification; protein sumoylation.
SUBUNIT: Interacts with HIPK1, HIPK2, PPM1J, RASD2 and TCF3 Interacts with NR2C1; the interaction promotes its sumoylation (By similarity). Forms a tight complex with RANGAP1 and RANBP2. Interacts with SIAH1 and PARP. Interacts with various transcription factors such as TFAP2A, TFAP2B, TFAP2C, AR, ETS1 and SOX4. Interacts with RWDD3; the interaction enhances the sumoylation of a number of proteins such as HIF1A and I-kappa-B. Interacts with DNMT1. Interacts with FOXL2. Forms a complex with SENP6 and UBE2I in response to UV irradiation. Interacts with human herpesvirus 6 IE2. Interacts with human adenovirus early E1A protein; this interaction interferes with polysumoylation (Probable). Interacts with DNM1l (via its GTPase and B domains); the interaction promotes sumoylation of DNM1L, mainly in its B domain. Interacts with PML-RARA oncoprotein (via the coiled-colied domain); the interaction is required for sumoylation of the PML- RARA oncoprotein. Interacts with IPO13. Interacts with NFATC2IP; this inhibits formation of poly-SUMO chains.
INTERACTION: O14503:BHLHE40; NbExp=3; IntAct=EBI-80168, EBI-711810; Q9UBC3:DNMT3B; NbExp=3; IntAct=EBI-80168, EBI-80125; P56524:HDAC4; NbExp=3; IntAct=EBI-80168, EBI-308629; O75928:PIAS2; NbExp=5; IntAct=EBI-80168, EBI-348555; Q9Y3V2:RWDD3; NbExp=5; IntAct=EBI-80168, EBI-1549885; Q13485:SMAD4; NbExp=3; IntAct=EBI-80168, EBI-347263; Q92754:TFAP2C; NbExp=3; IntAct=EBI-80168, EBI-937309; P22314:UBA1; NbExp=2; IntAct=EBI-80168, EBI-709688;
SUBCELLULAR LOCATION: Nucleus. Cytoplasm. Note=Mainly nuclear. In spermatocytes, localizes in synaptonemal complexes. Recruited by BCL11A into the nuclear body (By similarity).
TISSUE SPECIFICITY: Expressed in heart, skeletal muscle, pancreas, kidney, liver, lung, placenta and brain. Also expressed in testis and thymus.
SIMILARITY: Belongs to the ubiquitin-conjugating enzyme family.
SEQUENCE CAUTION: Sequence=AAH51289.3; Type=Erroneous initiation; Note=Translation N-terminally shortened; Sequence=BAD92225.1; Type=Erroneous initiation; Note=Translation N-terminally shortened;

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: UBE2I
Diseases sorted by gene-association score: pediatric fibrosarcoma (9), congenital fibrosarcoma (6), split hand-foot malformation (6)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 17.47 RPKM in Ovary
Total median expression: 525.64 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -73.20149-0.491 Picture PostScript Text
3' UTR -873.602224-0.393 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR000608 - UBQ-conjugat_E2
IPR023313 - UBQ-conjugating_AS
IPR016135 - UBQ-conjugating_enzyme/RWD

Pfam Domains:
PF00179 - Ubiquitin-conjugating enzyme

SCOP Domains:
54495 - UBC-like

Protein Data Bank (PDB) 3-D Structure
MuPIT help
1A3S - X-ray MuPIT 1KPS - X-ray MuPIT 1Z5Q - Model 1Z5S - X-ray MuPIT 2GRN - X-ray MuPIT 2GRO - X-ray MuPIT 2GRP - X-ray MuPIT 2GRQ - X-ray MuPIT 2GRR - X-ray MuPIT 2O25 - X-ray MuPIT 2PE6 - X-ray MuPIT 2PX9 - NMR 2XWU - X-ray 3A4S - X-ray MuPIT 3UIN - X-ray MuPIT 3UIO - X-ray MuPIT 3UIP - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on P63279
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000166 nucleotide binding
GO:0003723 RNA binding
GO:0004842 ubiquitin-protein transferase activity
GO:0005515 protein binding
GO:0005524 ATP binding
GO:0008022 protein C-terminus binding
GO:0008134 transcription factor binding
GO:0016740 transferase activity
GO:0019789 SUMO transferase activity
GO:0019899 enzyme binding
GO:0043398 HLH domain binding
GO:0043425 bHLH transcription factor binding
GO:0044388 small protein activating enzyme binding
GO:0061656 SUMO conjugating enzyme activity
GO:0071535 RING-like zinc finger domain binding
GO:0031625 ubiquitin protein ligase binding
GO:0061630 ubiquitin protein ligase activity

Biological Process:
GO:0000122 negative regulation of transcription from RNA polymerase II promoter
GO:0006464 cellular protein modification process
GO:0006511 ubiquitin-dependent protein catabolic process
GO:0007049 cell cycle
GO:0007059 chromosome segregation
GO:0010469 regulation of receptor activity
GO:0016032 viral process
GO:0016567 protein ubiquitination
GO:0016925 protein sumoylation
GO:0033145 positive regulation of intracellular steroid hormone receptor signaling pathway
GO:0043123 positive regulation of I-kappaB kinase/NF-kappaB signaling
GO:0043161 proteasome-mediated ubiquitin-dependent protein catabolic process
GO:0045892 negative regulation of transcription, DNA-templated
GO:0051091 positive regulation of sequence-specific DNA binding transcription factor activity
GO:0051301 cell division
GO:1903755 positive regulation of SUMO transferase activity

Cellular Component:
GO:0000795 synaptonemal complex
GO:0001650 fibrillar center
GO:0005634 nucleus
GO:0005635 nuclear envelope
GO:0005654 nucleoplasm
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0016604 nuclear body
GO:0016605 PML body
GO:0030425 dendrite
GO:0045202 synapse
GO:1990234 transferase complex
GO:1990356 sumoylated E2 ligase complex


-  Descriptions from all associated GenBank mRNAs
  LF385544 - JP 2014500723-A/193047: Polycomb-Associated Non-Coding RNAs.
LF385171 - JP 2014500723-A/192674: Polycomb-Associated Non-Coding RNAs.
AK291118 - Homo sapiens cDNA FLJ76182 complete cds, highly similar to Homo sapiens ubiquitin-conjugating enzyme E2I (UBC9 homolog, yeast) (UBE2I), transcript variant 1, mRNA.
U45328 - Homo sapiens ubiquitin-conjugating enzyme (UBE2I) mRNA, complete cds.
X96427 - H.sapiens mRNA for ubiquitin conjugating enzyme type UBC9.
D45050 - Homo sapiens mRNA for ubiquitin conjugating enzyme, complete cds.
U31933 - Human ubiquitin conjugating enzyme homolog mRNA, complete cds.
U38785 - Human RAD6 homolog mRNA, complete cds.
BC051289 - Homo sapiens ubiquitin-conjugating enzyme E2I (UBC9 homolog, yeast), mRNA (cDNA clone IMAGE:2824300).
AK093616 - Homo sapiens cDNA FLJ36297 fis, clone THYMU2004336, highly similar to UBIQUITIN-CONJUGATING ENZYME E2-18 KDA (EC 6.3.2.19).
U31882 - Human ubiquitin-conjugating enzyme 9 mRNA, complete cds.
U66818 - Human ubiquitin conjugating enzyme 9 (hUBC9) mRNA, complete cds.
AJ002385 - Homo sapiens mRNA for ubiquitin-conjugating enzyme UBC9.
BC000427 - Homo sapiens ubiquitin-conjugating enzyme E2I (UBC9 homolog, yeast), mRNA (cDNA clone MGC:8352 IMAGE:2819764), complete cds.
BC004429 - Homo sapiens ubiquitin-conjugating enzyme E2I (UBC9 homolog, yeast), mRNA (cDNA clone MGC:3835 IMAGE:2819764), complete cds.
U66867 - Human ubiquitin conjugating enzyme 9 (hUBC9) mRNA, complete cds.
AB208988 - Homo sapiens mRNA for ubiquitin-conjugating enzyme E2I variant protein.
BC000744 - Homo sapiens ubiquitin-conjugating enzyme E2I (UBC9 homolog, yeast), mRNA (cDNA clone IMAGE:2819732), with apparent retained intron.
BC004437 - Homo sapiens ubiquitin-conjugating enzyme E2I (UBC9 homolog, yeast), mRNA (cDNA clone IMAGE:2819732), with apparent retained intron.
U29092 - Homo sapiens ubiquitin conjugating enzyme mRNA, complete cds.
DQ894552 - Synthetic construct Homo sapiens clone IMAGE:100009012; FLH176316.01L; RZPDo839B12121D ubiquitin-conjugating enzyme E2I (UBC9 homolog, yeast) (UBE2I) gene, encodes complete protein.
DQ891373 - Synthetic construct clone IMAGE:100004003; FLH176320.01X; RZPDo839B12122D ubiquitin-conjugating enzyme E2I (UBC9 homolog, yeast) (UBE2I) gene, encodes complete protein.
KJ892346 - Synthetic construct Homo sapiens clone ccsbBroadEn_01740 UBE2I gene, encodes complete protein.
BT007010 - Homo sapiens ubiquitin-conjugating enzyme E2I (UBC9 homolog, yeast) mRNA, complete cds.
BT006932 - Homo sapiens ubiquitin-conjugating enzyme E2I (UBC9 homolog, yeast) mRNA, complete cds.
AL833737 - Homo sapiens mRNA; cDNA DKFZp666M115 (from clone DKFZp666M115).
BC014997 - Homo sapiens ubiquitin-conjugating enzyme E2I (UBC9 homolog, yeast), mRNA (cDNA clone IMAGE:4850173), with apparent retained intron.
BC069256 - Homo sapiens cDNA clone IMAGE:6215582, partial cds.
AK024172 - Homo sapiens cDNA FLJ14110 fis, clone MAMMA1001502.
JD095965 - Sequence 76989 from Patent EP1572962.
JD198233 - Sequence 179257 from Patent EP1572962.
JD143930 - Sequence 124954 from Patent EP1572962.
JD424625 - Sequence 405649 from Patent EP1572962.
JD350190 - Sequence 331214 from Patent EP1572962.
JD273332 - Sequence 254356 from Patent EP1572962.
BC064492 - Homo sapiens cDNA clone IMAGE:5090094, partial cds.
JD185235 - Sequence 166259 from Patent EP1572962.
JD108755 - Sequence 89779 from Patent EP1572962.
MA621121 - JP 2018138019-A/193047: Polycomb-Associated Non-Coding RNAs.
MA620748 - JP 2018138019-A/192674: Polycomb-Associated Non-Coding RNAs.

-  Biochemical and Signaling Pathways
  BioCyc Knowledge Library
PWY-7511 - protein ubiquitination

BioCarta from NCI Cancer Genome Anatomy Project
h_sumoPathway - Basic Mechanisms of SUMOylation
h_ctbp1Pathway - SUMOylation as a mechanism to modulate CtBP-dependent gene responses
h_eradPathway - ER¿associated degradation (ERAD) Pathway

Reactome (by CSHL, EBI, and GO)

Protein P63279 (Reactome details) participates in the following event(s):

R-HSA-2993769 Transfer of SUMO3 from E1 to UBE2I (UBC9)
R-HSA-2993780 Transfer of SUMO1 from E1 to UBE2I (UBC9)
R-HSA-2993790 Transfer of SUMO2 from E1 to UBE2I (UBC9)
R-HSA-2997616 PIAS1,4 SUMOylates BRCA1 with SUMO2,3
R-HSA-2997706 MDM2 SUMOylates TP53 with SUMO2,3
R-HSA-2997709 PIAS1,4 SUMOylates BRCA1 with SUMO1
R-HSA-2997723 PIAS4 SUMOylates TP53BP1 with SUMO1
R-HSA-3000348 RANBP2 SUMOylates SP100 with SUMO2
R-HSA-3000383 UBE2I, HDAC7 SUMOylate PML with SUMO1
R-HSA-3000399 RANBP2 SUMOylates SP100 with SUMO1
R-HSA-3000411 RANBP2 SUMOylates PML with SUMO2
R-HSA-3000433 SUMOylation of PML with SUMO3
R-HSA-3108212 SMC5-SMC6 Complex SUMOylates Cohesin with SUMO1
R-HSA-3232162 PIAS3 SUMOylates MITF with SUMO1
R-HSA-3234081 SUMOylation of TFAP2A with SUMO1
R-HSA-3234084 SUMOylation of TFAP2B with SUMO1
R-HSA-3234094 SUMOylation of TFAP2C with SUMO1
R-HSA-3247493 PIAS1 SUMOylates SP3 with SUMO1
R-HSA-3465545 PIAS1,3,4 SUMOylate MTA1 with SUMO2,3
R-HSA-3900047 SUMOylation of DDX17 with SUMO1
R-HSA-3968414 UBE2I (UBC9), PIAS1 SUMOylate FOXL2 with SUMO1
R-HSA-4090281 PIAS1,2-1 SUMOylate HIC1 with SUMO1
R-HSA-4546387 PIAS4 SUMOylates VDR with SUMO2
R-HSA-4551604 PIAS4 SUMOylates PARP1 with SUMO1
R-HSA-4551616 SUMOylation of RPA1 (RPA70) with SUMO2,3
R-HSA-4551648 SUMOylation of TDG with SUMO1
R-HSA-4551655 CBX4 SUMOylates BMI1 in PRC1 with SUMO1
R-HSA-4551661 PIAS4 SUMOylates RNF168 with SUMO1
R-HSA-4551724 PIAS4 SUMOylates HERC2 with SUMO1
R-HSA-4551727 CBX4 SUMOylates CBX4 in PRC1 with SUMO1
R-HSA-4551738 SUMOylation of TDG with SUMO2,3
R-HSA-4551768 PIAS4 SUMOylates PARP1 with SUMO2,3
R-HSA-4568846 CDKN2A (p14-ARF) SUMOylates WRN with SUMO1
R-HSA-4568848 PIAS1,2-1 SUMOylates XRCC4 with SUMO1
R-HSA-4568863 SUMOylation of RAD52 with SUMO1
R-HSA-4568914 SUMOylation of BLM with SUMO2,3
R-HSA-4570463 CBX4 (Pc2) SUMOylates CETN2 with SUMO2,3
R-HSA-4570467 SUMOylation of NOP58 with SUMO1
R-HSA-4570485 SUMOylation of Histone H4 with SUMO3
R-HSA-4570489 SUMOylation of NOP58 with SUMO2
R-HSA-4570493 RANBP2 (NUP358) SUMOylates HNRNPC with SUMO1
R-HSA-4570496 SUMOylation of Histone H4 with SUMO1
R-HSA-4570499 CBX4 (Pc2) SUMOylates HNRNPK with SUMO2
R-HSA-4570528 SUMOylation of XPC with SUMO1
R-HSA-4570553 SUMOylation of MDC1 with SUMO2,3
R-HSA-4570554 SUMOylation of MDC1 with SUMO1
R-HSA-4615839 PIAS1 SUMOylates SATB1 with SUMO2,3
R-HSA-4615872 RANBP2 SUMOylates HDAC4 with SUMO1
R-HSA-4615873 PIAS2-2 SUMOylates SUZ12 with SUMO1
R-HSA-4615889 SUMOylation of HDAC1 with SUMO1
R-HSA-4615900 PIAS1 SUMOylates SATB2 with SUMO3
R-HSA-4615905 PIAS1 SUMOylates SATB1 with SUMO1
R-HSA-4615910 SUMOylation of PCNA with SUMO1
R-HSA-4615933 SUMOylation of CBX5 with SUMO1
R-HSA-4615987 RANBP2 SUMOylates HDAC4 with SUMO2,3
R-HSA-4616015 SUMOylation of HDAC2 with SUMO1
R-HSA-4641342 SUMOylation of TOP2A with SUMO1
R-HSA-4641345 SUMOylation of TOP2B with SUMO1
R-HSA-4641350 PIAS4 SUMOylates TOP2A with SUMO2,3
R-HSA-4641362 SUMOylation of TOP1 with SUMO1
R-HSA-5228508 RANBP2 SUMOylates PML with SUMO1
R-HSA-5228525 RANBP2 SUMOylates TOP2A with SUMO1
R-HSA-5682607 PIAS4 SUMOylates HERC2 with SUMO1 at DNA DSBs
R-HSA-5684052 PIAS4 SUMOylates MDC1
R-HSA-6790454 SUMOylation of XPC
R-HSA-6804468 PIAS1 SUMOylates SP3 with SUMO2
R-HSA-6804485 PIAS1 SUMOylates L3MBTL2 with SUMO2
R-HSA-8956365 ZBED1 (DREF) SUMOylates CHD3 with SUMO1
R-HSA-1221632 Meiotic synapsis
R-HSA-3065678 SUMO is transferred from E1 to E2 (UBE2I, UBC9)
R-HSA-3108214 SUMOylation of DNA damage response and repair proteins
R-HSA-3232118 SUMOylation of transcription factors
R-HSA-8866904 Negative regulation of activity of TFAP2 (AP-2) family transcription factors
R-HSA-3899300 SUMOylation of transcription cofactors
R-HSA-196791 Vitamin D (calciferol) metabolism
R-HSA-4551638 SUMOylation of chromatin organization proteins
R-HSA-4570464 SUMOylation of RNA binding proteins
R-HSA-4615885 SUMOylation of DNA replication proteins
R-HSA-5693565 Recruitment and ATM-mediated phosphorylation of repair and signaling proteins at DNA double strand breaks
R-HSA-5693607 Processing of DNA double-strand break ends
R-HSA-5696395 Formation of Incision Complex in GG-NER
R-HSA-1500620 Meiosis
R-HSA-3215018 Processing and activation of SUMO
R-HSA-3108232 SUMO E3 ligases SUMOylate target proteins
R-HSA-8864260 Transcriptional regulation by the AP-2 (TFAP2) family of transcription factors
R-HSA-209943 Steroid hormones
R-HSA-8957322 Metabolism of steroids
R-HSA-5693606 DNA Double Strand Break Response
R-HSA-5693567 HDR through Homologous Recombination (HR) or Single Strand Annealing (SSA)
R-HSA-5696399 Global Genome Nucleotide Excision Repair (GG-NER)
R-HSA-1474165 Reproduction
R-HSA-1640170 Cell Cycle
R-HSA-2990846 SUMOylation
R-HSA-212436 Generic Transcription Pathway
R-HSA-556833 Metabolism of lipids
R-HSA-5693532 DNA Double-Strand Break Repair
R-HSA-5693538 Homology Directed Repair
R-HSA-5696398 Nucleotide Excision Repair
R-HSA-597592 Post-translational protein modification
R-HSA-73857 RNA Polymerase II Transcription
R-HSA-1430728 Metabolism
R-HSA-73894 DNA Repair
R-HSA-392499 Metabolism of proteins
R-HSA-74160 Gene expression (Transcription)

-  Other Names for This Gene
  Alternate Gene Symbols: D3DU69, ENST00000397514.1, ENST00000397514.2, ENST00000397514.3, ENST00000397514.4, ENST00000397514.5, ENST00000397514.6, ENST00000397514.7, NM_003345, P50550, P63279, Q15698, Q59GX1, Q86VB3, UBC9, UBC9_HUMAN, UBCE9, uc318zbn.1, uc318zbn.2
UCSC ID: ENST00000397514.8_6
RefSeq Accession: NM_003345.5
Protein: P63279 (aka UBC9_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.