Human Gene MID2 (ENST00000262843.11_5) from GENCODE V47lift37
  Description: midline 2, transcript variant 1 (from RefSeq NM_012216.4)
Gencode Transcript: ENST00000262843.11_5
Gencode Gene: ENSG00000080561.14_8
Transcript (Including UTRs)
   Position: hg19 chrX:107,069,096-107,174,867 Size: 105,772 Total Exon Count: 10 Strand: +
Coding Region
   Position: hg19 chrX:107,069,657-107,170,303 Size: 100,647 Coding Exon Count: 10 

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

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chrX:107,069,096-107,174,867)mRNA (may differ from genome)Protein (735 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
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HGNCMalacardsMGIOMIMPubMedUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: TRIM1_HUMAN
DESCRIPTION: RecName: Full=Probable E3 ubiquitin-protein ligase MID2; EC=6.3.2.-; AltName: Full=Midin-2; AltName: Full=Midline defect 2; AltName: Full=Midline-2; AltName: Full=RING finger protein 60; AltName: Full=Tripartite motif-containing protein 1;
PATHWAY: Protein modification; protein ubiquitination.
SUBUNIT: Homodimer or heterodimer with MID1. Interacts with IGBP1.
SUBCELLULAR LOCATION: Cytoplasm. Cytoplasm, cytoskeleton. Note=Microtubule-associated.
TISSUE SPECIFICITY: Low level in fetal kidney and lung, and in adult prostate, ovary and small intestine.
DOMAIN: The tripartite motif (RBCC; RING- and B box-type zinc fingers and coiled coil domains) mediates dimerization (By similarity).
DOMAIN: Associates with microtubules in a manner that is dependent on the C-terminal B30.2 domain.
PTM: Phosphorylated on serine and threonine residues.
SIMILARITY: Belongs to the TRIM/RBCC family.
SIMILARITY: Contains 2 B box-type zinc fingers.
SIMILARITY: Contains 1 B30.2/SPRY domain.
SIMILARITY: Contains 1 COS domain.
SIMILARITY: Contains 1 fibronectin type-III domain.
SIMILARITY: Contains 1 RING-type zinc finger.
CAUTION: It is uncertain whether Met-1 or Met-21 is the initiator.
SEQUENCE CAUTION: Sequence=AAF07341.1; Type=Erroneous initiation; Note=Translation N-terminally extended; Sequence=AAH17707.1; Type=Erroneous initiation; Note=Translation N-terminally extended; Sequence=CAB56154.1; Type=Erroneous initiation; Note=Translation N-terminally extended; Sequence=CAI42073.1; Type=Erroneous gene model prediction; Sequence=CAO72053.1; Type=Erroneous gene model prediction;

-  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: MID2
Diseases sorted by gene-association score: mental retardation, x-linked 101* (1380), x-linked non-specific intellectual disability* (143), opitz-gbbb syndrome (15), anogenital venereal wart (11), discitis (7), hypospadias (6)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  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: 5.41 RPKM in Skin - Sun Exposed (Lower leg)
Total median expression: 135.76 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 -295.90561-0.527 Picture PostScript Text
3' UTR -1122.374564-0.246 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
IPR001870 - B30.2/SPRY
IPR003649 - Bbox_C
IPR003879 - Butyrophylin
IPR008985 - ConA-like_lec_gl_sf
IPR017903 - COS_domain
IPR003961 - Fibronectin_type3
IPR013783 - Ig-like_fold
IPR018355 - SPla/RYanodine_receptor_subgr
IPR003877 - SPRY_rcpt
IPR000315 - Znf_B-box
IPR001841 - Znf_RING
IPR013083 - Znf_RING/FYVE/PHD
IPR017907 - Znf_RING_CS

Pfam Domains:
PF00097 - Zinc finger, C3HC4 type (RING finger)
PF00622 - SPRY domain
PF00643 - B-box zinc finger
PF13445 - RING-type zinc-finger
PF13920 - Zinc finger, C3HC4 type (RING finger)
PF18568 - TRIM C-terminal subgroup One Signature domain

SCOP Domains:
49265 - Fibronectin type III
49899 - Concanavalin A-like lectins/glucanases
52540 - P-loop containing nucleoside triphosphate hydrolases
57845 - B-box zinc-binding domain
57850 - RING/U-box
57889 - Cysteine-rich domain

Protein Data Bank (PDB) 3-D Structure
MuPIT help
2DJA - NMR MuPIT 2DMK - NMR MuPIT


ModBase Predicted Comparative 3D Structure on Q9UJV3
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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    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding
GO:0008017 microtubule binding
GO:0008270 zinc ion binding
GO:0016740 transferase activity
GO:0042802 identical protein binding
GO:0042803 protein homodimerization activity
GO:0046872 metal ion binding
GO:0046982 protein heterodimerization activity
GO:0051219 phosphoprotein binding

Biological Process:
GO:0010508 positive regulation of autophagy
GO:0016567 protein ubiquitination
GO:0032897 negative regulation of viral transcription
GO:0035372 protein localization to microtubule
GO:0043123 positive regulation of I-kappaB kinase/NF-kappaB signaling
GO:0045087 innate immune response
GO:0046597 negative regulation of viral entry into host cell
GO:0051091 positive regulation of sequence-specific DNA binding transcription factor activity
GO:0051092 positive regulation of NF-kappaB transcription factor activity
GO:1902187 negative regulation of viral release from host cell

Cellular Component:
GO:0005622 intracellular
GO:0005737 cytoplasm
GO:0005856 cytoskeleton
GO:0005874 microtubule
GO:0070062 extracellular exosome


-  Descriptions from all associated GenBank mRNAs
  Y18880 - Homo sapiens mRNA for MID2 protein.
AF196481 - Homo sapiens RING finger protein (FXY2) mRNA, complete cds.
BC017707 - Homo sapiens midline 2, mRNA (cDNA clone MGC:21197 IMAGE:4446324), complete cds.
CU676030 - Synthetic construct Homo sapiens gateway clone IMAGE:100020014 5' read MID2 mRNA.
BT006663 - Homo sapiens midline 2 mRNA, complete cds.
JF432292 - Synthetic construct Homo sapiens clone IMAGE:100073469 midline 2 (MID2) gene, encodes complete protein.
KJ904666 - Synthetic construct Homo sapiens clone ccsbBroadEn_14060 MID2 gene, encodes complete protein.
AY625004 - Homo sapiens cell-line TE671 TRIM1 beta mRNA, complete cds.
JD216019 - Sequence 197043 from Patent EP1572962.
JD471340 - Sequence 452364 from Patent EP1572962.
JD480100 - Sequence 461124 from Patent EP1572962.
JD247233 - Sequence 228257 from Patent EP1572962.
JD038229 - Sequence 19253 from Patent EP1572962.
MP014822 - Sequence 25 from Patent WO2019016252.
JD546861 - Sequence 527885 from Patent EP1572962.
JD499928 - Sequence 480952 from Patent EP1572962.
AK123807 - Homo sapiens cDNA FLJ41813 fis, clone NT2RI2011450.
JD346778 - Sequence 327802 from Patent EP1572962.
JD495463 - Sequence 476487 from Patent EP1572962.
JD551959 - Sequence 532983 from Patent EP1572962.
JD337812 - Sequence 318836 from Patent EP1572962.
JD505014 - Sequence 486038 from Patent EP1572962.
JD547516 - Sequence 528540 from Patent EP1572962.
JD526006 - Sequence 507030 from Patent EP1572962.
JD259834 - Sequence 240858 from Patent EP1572962.
JD317054 - Sequence 298078 from Patent EP1572962.
JD565021 - Sequence 546045 from Patent EP1572962.
AK095034 - Homo sapiens cDNA FLJ37715 fis, clone BRHIP2018719.
JD308969 - Sequence 289993 from Patent EP1572962.
JD539940 - Sequence 520964 from Patent EP1572962.
JD411718 - Sequence 392742 from Patent EP1572962.
JD323670 - Sequence 304694 from Patent EP1572962.
JD410577 - Sequence 391601 from Patent EP1572962.
JD454235 - Sequence 435259 from Patent EP1572962.
JD359598 - Sequence 340622 from Patent EP1572962.
JD168865 - Sequence 149889 from Patent EP1572962.
JD172673 - Sequence 153697 from Patent EP1572962.
JD059091 - Sequence 40115 from Patent EP1572962.
BC035557 - Homo sapiens, clone IMAGE:4539188, mRNA.
JD506494 - Sequence 487518 from Patent EP1572962.
JD348844 - Sequence 329868 from Patent EP1572962.
BC058011 - Homo sapiens cDNA clone IMAGE:4714628, partial cds.
BC070370 - Homo sapiens cDNA clone IMAGE:4066961, partial cds.
JD300623 - Sequence 281647 from Patent EP1572962.
JD166434 - Sequence 147458 from Patent EP1572962.
JD092117 - Sequence 73141 from Patent EP1572962.
JD067010 - Sequence 48034 from Patent EP1572962.
JD305415 - Sequence 286439 from Patent EP1572962.
JD566070 - Sequence 547094 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: A6NEL8, A6PVI5, ENST00000262843.1, ENST00000262843.10, ENST00000262843.2, ENST00000262843.3, ENST00000262843.4, ENST00000262843.5, ENST00000262843.6, ENST00000262843.7, ENST00000262843.8, ENST00000262843.9, FXY2, NM_012216, Q5JYF5, Q8WWK1, Q9UJR9, Q9UJV3, RNF60, TRIM1, TRIM1_HUMAN, uc317hdx.1, uc317hdx.2
UCSC ID: ENST00000262843.11_5
RefSeq Accession: NM_012216.4
Protein: Q9UJV3 (aka TRIM1_HUMAN or MID2_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.