Human Gene SERBP1 (ENST00000361219.11_8) from GENCODE V47lift37
  Description: SERPINE1 mRNA binding protein 1, transcript variant 3 (from RefSeq NM_001018069.2)
Gencode Transcript: ENST00000361219.11_8
Gencode Gene: ENSG00000142864.15_13
Transcript (Including UTRs)
   Position: hg19 chr1:67,873,493-67,896,085 Size: 22,593 Total Exon Count: 8 Strand: -
Coding Region
   Position: hg19 chr1:67,878,890-67,895,983 Size: 17,094 Coding Exon Count: 8 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:67,873,493-67,896,085)mRNA (may differ from genome)Protein (393 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMGIOMIMPubMedUniProtKBWikipedia
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: PAIRB_HUMAN
DESCRIPTION: RecName: Full=Plasminogen activator inhibitor 1 RNA-binding protein; AltName: Full=PAI1 RNA-binding protein 1; Short=PAI-RBP1; AltName: Full=SERPINE1 mRNA-binding protein 1;
FUNCTION: May play a role in the regulation of mRNA stability. Binds to the 3'-most 134 nt of the SERPINE1/PAI1 mRNA, a region which confers cyclic nucleotide regulation of message decay.
SUBUNIT: Interacts with CHD3 and TDRD3.
INTERACTION: Q12873:CHD3; NbExp=5; IntAct=EBI-523558, EBI-523590;
SUBCELLULAR LOCATION: Cytoplasm. Nucleus. Cytoplasm, perinuclear region. Note=Also found in perinuclear regions.
TISSUE SPECIFICITY: Expressed at high level in the heart, skeletal muscle and kidney, and at low levels in placenta, liver and brain.

-  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


-  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: 85.78 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 1271.39 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 -45.20102-0.443 Picture PostScript Text
3' UTR -1436.105397-0.266 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
IPR006861 - HABP4_PAIRBP1-bd

Pfam Domains:
PF04774 - Hyaluronan / mRNA binding family
PF16174 - Intracellular hyaluronan-binding protein 4 N-terminal

ModBase Predicted Comparative 3D Structure on Q8NC51
FrontTopSide
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:0003723 RNA binding
GO:0003730 mRNA 3'-UTR binding
GO:0005515 protein binding
GO:0045296 cadherin binding

Biological Process:
GO:0042981 regulation of apoptotic process
GO:0043488 regulation of mRNA stability

Cellular Component:
GO:0005634 nucleus
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0005886 plasma membrane
GO:0016020 membrane
GO:0048471 perinuclear region of cytoplasm
GO:0070062 extracellular exosome


-  Descriptions from all associated GenBank mRNAs
  HQ447687 - Synthetic construct Homo sapiens clone IMAGE:100071706; CCSB000432_02 SERPINE1 mRNA binding protein 1 (SERBP1) gene, encodes complete protein.
KJ893526 - Synthetic construct Homo sapiens clone ccsbBroadEn_02920 SERBP1 gene, encodes complete protein.
KJ893527 - Synthetic construct Homo sapiens clone ccsbBroadEn_02921 SERBP1 gene, encodes complete protein.
KJ898598 - Synthetic construct Homo sapiens clone ccsbBroadEn_07992 SERBP1 gene, encodes complete protein.
KJ906111 - Synthetic construct Homo sapiens clone ccsbBroadEn_15781 SERBP1 gene, encodes complete protein.
AK074970 - Homo sapiens cDNA FLJ90489 fis, clone NT2RP3003473, moderately similar to PAI-1 mRNA-binding protein.
FW340048 - Screening.
BX647139 - Homo sapiens mRNA; cDNA DKFZp686P17171 (from clone DKFZp686P17171).
AL080119 - Homo sapiens mRNA; cDNA DKFZp564M2423 (from clone DKFZp564M2423).
AF151813 - Homo sapiens CGI-55 protein mRNA, complete cds.
AK223138 - Homo sapiens mRNA for PAI-1 mRNA-binding protein variant, clone: KDN03162.
BC020555 - Homo sapiens SERPINE1 mRNA binding protein 1, mRNA (cDNA clone MGC:21447 IMAGE:3446543), complete cds.
BC002488 - Homo sapiens SERPINE1 mRNA binding protein 1, mRNA (cDNA clone MGC:1357 IMAGE:3051198), complete cds.
AK222955 - Homo sapiens mRNA for PAI-1 mRNA-binding protein variant, clone: HRT01837.
BC008045 - Homo sapiens SERPINE1 mRNA binding protein 1, mRNA (cDNA clone MGC:16069 IMAGE:3615828), complete cds.
BC017449 - Homo sapiens SERPINE1 mRNA binding protein 1, mRNA (cDNA clone MGC:15923 IMAGE:3535655), complete cds.
BC026916 - Homo sapiens SERPINE1 mRNA binding protein 1, mRNA (cDNA clone MGC:25048 IMAGE:4477452), complete cds.
AY032853 - Homo sapiens CGI-55 mRNA, partial cds.
BC003049 - Homo sapiens SERPINE1 mRNA binding protein 1, mRNA (cDNA clone MGC:684 IMAGE:3547236), complete cds.
BC019273 - Homo sapiens SERPINE1 mRNA binding protein 1, mRNA (cDNA clone MGC:3552 IMAGE:2823760), complete cds.
AK130606 - Homo sapiens cDNA FLJ27096 fis, clone SPL04464.
CR457383 - Homo sapiens full open reading frame cDNA clone RZPDo834C0614D for gene PAI-RBP1, PAI-1 mRNA-binding protein; complete cds, incl. stopcodon.
AK312256 - Homo sapiens cDNA, FLJ92551, Homo sapiens PAI-1 mRNA-binding protein (PAI-RBP1), mRNA.
EU831638 - Synthetic construct Homo sapiens clone HAIB:100066667; DKFZo007E1219 SERPINE1 mRNA binding protein 1 protein (SERBP1) gene, encodes complete protein.
EU831446 - Synthetic construct Homo sapiens clone HAIB:100066475; DKFZo008D1017 SERPINE1 mRNA binding protein 1 protein (SERBP1) gene, encodes complete protein.
EU832650 - Synthetic construct Homo sapiens clone HAIB:100067679; DKFZo008E1231 SERPINE1 mRNA binding protein 1 protein (SERBP1) gene, encodes complete protein.
EU832728 - Synthetic construct Homo sapiens clone HAIB:100067757; DKFZo004E1232 SERPINE1 mRNA binding protein 1 protein (SERBP1) gene, encodes complete protein.
EU831722 - Synthetic construct Homo sapiens clone HAIB:100066751; DKFZo003E1220 SERPINE1 mRNA binding protein 1 protein (SERBP1) gene, encodes complete protein.
AB527591 - Synthetic construct DNA, clone: pF1KB6605, Homo sapiens SERBP1 gene for SERPINE1 mRNA binding protein 1, without stop codon, in Flexi system.
CU675982 - Synthetic construct Homo sapiens gateway clone IMAGE:100017151 5' read SERBP1 mRNA.
CU677990 - Synthetic construct Homo sapiens gateway clone IMAGE:100018227 5' read SERBP1 mRNA.
CU676556 - Synthetic construct Homo sapiens gateway clone IMAGE:100017193 5' read SERBP1 mRNA.
CU693242 - Synthetic construct Homo sapiens gateway clone IMAGE:100019268 5' read SERBP1 mRNA.
AK095960 - Homo sapiens cDNA FLJ38641 fis, clone HHDPC2003983.
BC036414 - Homo sapiens cDNA clone IMAGE:4793926.
AF131807 - Homo sapiens clone 25076 mRNA sequence.
JD566688 - Sequence 547712 from Patent EP1572962.
JD299982 - Sequence 281006 from Patent EP1572962.
JD235558 - Sequence 216582 from Patent EP1572962.
JD268871 - Sequence 249895 from Patent EP1572962.
JD240154 - Sequence 221178 from Patent EP1572962.
JD285187 - Sequence 266211 from Patent EP1572962.
JD283544 - Sequence 264568 from Patent EP1572962.
JD551201 - Sequence 532225 from Patent EP1572962.
JD202438 - Sequence 183462 from Patent EP1572962.
JD543940 - Sequence 524964 from Patent EP1572962.
JD368814 - Sequence 349838 from Patent EP1572962.
JD501155 - Sequence 482179 from Patent EP1572962.
JD423329 - Sequence 404353 from Patent EP1572962.
JD200592 - Sequence 181616 from Patent EP1572962.
JD406046 - Sequence 387070 from Patent EP1572962.
JD057341 - Sequence 38365 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: CGI-55 , ENST00000361219.1, ENST00000361219.10, ENST00000361219.2, ENST00000361219.3, ENST00000361219.4, ENST00000361219.5, ENST00000361219.6, ENST00000361219.7, ENST00000361219.8, ENST00000361219.9, NM_001018069, PAIRBP1, Q5VU19, Q5VU20, Q5VU22, Q8NC51, Q8WUH0, Q96SE2, Q9BTY3, Q9BUM4, Q9Y367, Q9Y4S3, SERB1_HUMAN, SERBP1 , uc318bya.1, uc318bya.2
UCSC ID: ENST00000361219.11_8
RefSeq Accession: NM_001018069.2
Protein: Q8NC51 (aka PAIRB_HUMAN or PAIB_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.