Human Gene THEMIS2 (ENST00000373921.8) from GENCODE V44
  Description: Homo sapiens thymocyte selection associated family member 2 (THEMIS2), transcript variant 5, mRNA. (from RefSeq NM_001286115)
Gencode Transcript: ENST00000373921.8
Gencode Gene: ENSG00000130775.16
Transcript (Including UTRs)
   Position: hg38 chr1:27,872,544-27,886,675 Size: 14,132 Total Exon Count: 6 Strand: +
Coding Region
   Position: hg38 chr1:27,872,572-27,885,922 Size: 13,351 Coding Exon Count: 6 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:27,872,544-27,886,675)mRNA (may differ from genome)Protein (643 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGencodeGeneCards
HGNCLynxMalacardsMGIneXtProtOMIM
PubMedUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: THMS2_HUMAN
DESCRIPTION: RecName: Full=Protein THEMIS2; AltName: Full=Induced by contact to basement membrane 1 protein; Short=Protein ICB-1; AltName: Full=Thymocyte-expressed molecule involved in selection protein 2;
FUNCTION: May constitute a control point in macrophage inflammatory response, promoting LPS-induced TNF production.
SUBUNIT: When phosphorylated, interacts with LYN. Interacts with VAV1 and GRB2 (By similarity).
TISSUE SPECIFICITY: Expressed in different endometrial adenocarcinoma cell lines and various other cell lines apart from the prostate cell line LNCaP and the ovarian cancer cell line BG1.
INDUCTION: By contact to a reconstituted basement membrane.
PTM: Phosphorylation at Tyr-632 is induced by LPS (By similarity).
SIMILARITY: Belongs to the themis family.
SEQUENCE CAUTION: Sequence=AAC16284.1; Type=Frameshift; Positions=416, 469, 494, 530, 532; Sequence=BAA96464.1; Type=Erroneous initiation; Note=Translation N-terminally extended; Sequence=BAB33313.1; Type=Erroneous initiation; Note=Translation N-terminally extended; Sequence=BAG64201.1; Type=Erroneous initiation; Note=Translation N-terminally extended; Sequence=CAI21769.1; Type=Erroneous gene model prediction; Sequence=CAI21771.1; Type=Erroneous gene model prediction; Sequence=CAI21773.1; 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: THEMIS2
Diseases sorted by gene-association score: endometrial adenocarcinoma (9)

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

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 102.39 RPKM in Whole Blood
Total median expression: 381.40 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 -4.7028-0.168 Picture PostScript Text
3' UTR -229.40753-0.305 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
IPR025946 - CABIT_dom

Pfam Domains:
PF12736 - Cell-cycle sustaining, positive selection,

ModBase Predicted Comparative 3D Structure on Q5TEJ8
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-  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
Genome BrowserGenome BrowserGenome BrowserNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGDEnsembl   
Protein SequenceProtein SequenceProtein Sequence   
AlignmentAlignmentAlignment   

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding

Biological Process:
GO:0002376 immune system process
GO:0006954 inflammatory response
GO:0007155 cell adhesion
GO:0050852 T cell receptor signaling pathway

Cellular Component:
GO:0005634 nucleus
GO:0005737 cytoplasm


-  Descriptions from all associated GenBank mRNAs
  KJ892778 - Synthetic construct Homo sapiens clone ccsbBroadEn_02172 C1orf38 gene, encodes complete protein.
CR749321 - Homo sapiens mRNA; cDNA DKFZp686D1526 (from clone DKFZp686D1526).
BC133049 - Homo sapiens chromosome 1 open reading frame 38, mRNA (cDNA clone IMAGE:40147071), complete cds.
BC132692 - Homo sapiens chromosome 1 open reading frame 38, mRNA (cDNA clone IMAGE:40146714), complete cds.
AK303141 - Homo sapiens cDNA FLJ56423 complete cds, highly similar to Induced by contact to basement membrane 1protein.
HQ258751 - Synthetic construct Homo sapiens clone IMAGE:100072781 chromosome 1 open reading frame 38 (C1orf38), transcript variant 1 (C1orf38) gene, encodes complete protein.
BC031655 - Homo sapiens chromosome 1 open reading frame 38, mRNA (cDNA clone IMAGE:5170350), partial cds.
AK303090 - Homo sapiens cDNA FLJ61506 complete cds, highly similar to Induced by contact to basement membrane 1 protein.
BC081568 - Homo sapiens chromosome 1 open reading frame 38, mRNA (cDNA clone IMAGE:6302647).
AB050854 - Homo sapiens mRNA for ICB-1gamma, complete cds.
AF044896 - Homo sapiens ICB-1 mRNA, complete cds.
JD066090 - Sequence 47114 from Patent EP1572962.
JD338116 - Sequence 319140 from Patent EP1572962.
JD086250 - Sequence 67274 from Patent EP1572962.
AB035482 - Homo sapiens mRNA for ICB-1beta, complete cds.
JD496660 - Sequence 477684 from Patent EP1572962.
JD263881 - Sequence 244905 from Patent EP1572962.
JD264395 - Sequence 245419 from Patent EP1572962.
JD322082 - Sequence 303106 from Patent EP1572962.
JD120102 - Sequence 101126 from Patent EP1572962.
JD382388 - Sequence 363412 from Patent EP1572962.
JD103541 - Sequence 84565 from Patent EP1572962.
JD361275 - Sequence 342299 from Patent EP1572962.
JD375650 - Sequence 356674 from Patent EP1572962.
AK094833 - Homo sapiens cDNA FLJ37514 fis, clone BRCAN2000639.
AK309633 - Homo sapiens cDNA, FLJ99674.
JD081581 - Sequence 62605 from Patent EP1572962.
AF323721 - Homo sapiens ICB1 delta variant (ICB1) mRNA, 3' UTR.
JD060232 - Sequence 41256 from Patent EP1572962.
JD080124 - Sequence 61148 from Patent EP1572962.
JD535080 - Sequence 516104 from Patent EP1572962.
JD184435 - Sequence 165459 from Patent EP1572962.
JD267989 - Sequence 249013 from Patent EP1572962.
JD512200 - Sequence 493224 from Patent EP1572962.
JD449337 - Sequence 430361 from Patent EP1572962.
JD354665 - Sequence 335689 from Patent EP1572962.
JD503794 - Sequence 484818 from Patent EP1572962.
JD213579 - Sequence 194603 from Patent EP1572962.
JD102311 - Sequence 83335 from Patent EP1572962.
JD328352 - Sequence 309376 from Patent EP1572962.
JD545561 - Sequence 526585 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: A2RTZ3, B4DZT9, B4DZY3, C1orf38, ENST00000373921.1, ENST00000373921.2, ENST00000373921.3, ENST00000373921.4, ENST00000373921.5, ENST00000373921.6, ENST00000373921.7, ICB1, NM_001286115, O60560, Q5TEJ1, Q5TEJ8, Q5TEJ9, Q5TEK1, Q68DP4, Q9BYB6, Q9NS90, THMS2_HUMAN, uc001bpc.1, uc001bpc.2, uc001bpc.3, uc001bpc.4, uc001bpc.5, uc001bpc.6, uc001bpc.7
UCSC ID: ENST00000373921.8
RefSeq Accession: NM_001105556
Protein: Q5TEJ8 (aka THMS2_HUMAN)
CCDS: CCDS41290.1

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