Human Gene C1QTNF9 (ENST00000332018.5_5) from GENCODE V47lift37

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Description: C1q and TNF related 9, transcript variant 2 (from RefSeq NM_178540.5)
Gencode Transcript: ENST00000332018.5_5
Gencode Gene: ENSG00000240654.6_9
Transcript (Including UTRs)
Position: hg19 chr13:24,883,718-24,896,669 Size: 12,952 Total Exon Count: 4 Strand: +
Coding Region
Position: hg19 chr13:24,890,142-24,895,906 Size: 5,765 Coding Exon Count: 3

Page Index	Sequence and Links	UniProtKB Comments	Primers	CTD	Gene Alleles
RNA-Seq Expression	Microarray Expression	RNA Structure	Protein Structure	Other Species	GO Annotations
mRNA Descriptions	Other Names	Model Information	Methods

Data last updated at UCSC: 2024-08-22 23:36:26

Sequence and Links to Tools and Databases

Genomic Sequence (chr13:24,883,718-24,896,669)			mRNA (may differ from genome)		Protein (333 aa)
Gene Sorter	Genome Browser	Other Species FASTA	Gene interactions	Table Schema	AlphaFold
BioGPS	Ensembl	Entrez Gene	ExonPrimer	GeneCards	HGNC
MGI	OMIM	PubMed	UniProtKB	BioGrid CRISPR DB

Comments and Description Text from UniProtKB


	ID: C1T9A_HUMAN DESCRIPTION: RecName: Full=Complement C1q and tumor necrosis factor-related protein 9A; AltName: Full=Complement C1q and tumor necrosis factor-related protein 9; Flags: Precursor; FUNCTION: Probable adipokine. Activates AMPK, AKT, and p44/42 MAPK signaling pathways (By similarity). SUBUNIT: Multimers (predominantly trimers). Interacts with ADIPOQ via the C1q domain to form a heterotrimeric complex (By similarity). Interacts with CTRP9B. Forms heterotrimers and heterooligomeric complexes with CTRP9B. SUBCELLULAR LOCATION: Secreted (By similarity). TISSUE SPECIFICITY: Expressed predominantly in adipose tissue. SIMILARITY: Contains 1 C1q domain. SIMILARITY: Contains 3 collagen-like domains.

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.
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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 D019327 Copper Sulfate D003993 Dibutyl Phthalate C015559 trimellitic anhydride

Common Gene Haplotype Alleles


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RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)


	Highest median expression: 0.00 RPKM in (null) Total median expression: 0.00 RPKM View in GTEx track of Genome Browser View at GTEx portal View GTEx Body Map

Microarray Expression Data


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mRNA Secondary Structure of 3' and 5' UTRs

Region	Fold Energy	Bases	Energy/Base	Display As
5' UTR	-14.60	59	-0.247	Picture	PostScript	Text
3' UTR	-161.40	763	-0.212	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
IPR001073 - C1q
IPR008160 - Collagen
IPR008983 - Tumour_necrosis_fac-like

Pfam Domains:
PF00386 - C1q domain
PF01391 - Collagen triple helix repeat (20 copies)

SCOP Domains:
49842 - TNF-like
51011 - Glycosyl hydrolase domain

ModBase Predicted Comparative 3D Structure on P0C862


Front	Top	Side

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.

Mouse	Rat	Zebrafish	D. melanogaster	C. elegans	S. cerevisiae
No ortholog	No ortholog	No ortholog	No ortholog	No ortholog	No ortholog
Gene Details	Gene Details
Gene Sorter	Gene Sorter
	RGD	Ensembl

Gene Ontology (GO) Annotations with Structured Vocabulary


	Molecular Function: GO:0005179 hormone activity GO:0005515 protein binding GO:0042802 identical protein binding Biological Process: GO:0010469 regulation of receptor activity Cellular Component: GO:0005576 extracellular region GO:0005581 collagen trimer

Descriptions from all associated GenBank mRNAs


	BX648445 - Homo sapiens mRNA; cDNA DKFZp781B1420 (from clone DKFZp781B1420). BC040438 - Homo sapiens C1q and tumor necrosis factor related protein 9, mRNA (cDNA clone MGC:48915 IMAGE:5227612), complete cds. AY358145 - Homo sapiens clone DNA172209 RIWW6503 (UNQ6503) mRNA, complete cds. JD527166 - Sequence 508190 from Patent EP1572962. CU691876 - Synthetic construct Homo sapiens gateway clone IMAGE:100021124 5' read C1QTNF9 mRNA. HQ448535 - Synthetic construct Homo sapiens clone IMAGE:100071970; CCSB011316_01 C1q and tumor necrosis factor related protein 9 (C1QTNF9) gene, encodes complete protein. KJ900611 - Synthetic construct Homo sapiens clone ccsbBroadEn_10005 C1QTNF9 gene, encodes complete protein. JD500483 - Sequence 481507 from Patent EP1572962. JD562508 - Sequence 543532 from Patent EP1572962. JD059524 - Sequence 40548 from Patent EP1572962. JD083940 - Sequence 64964 from Patent EP1572962. JD291007 - Sequence 272031 from Patent EP1572962. JD482116 - Sequence 463140 from Patent EP1572962. JD350120 - Sequence 331144 from Patent EP1572962.

Other Names for This Gene


	Alternate Gene Symbols: A2A3T6, C1QTNF9A, C1T9A_HUMAN, ENST00000332018.1, ENST00000332018.2, ENST00000332018.3, ENST00000332018.4, NM_178540, P0C862, Q0VGC5, Q5VX65, Q5VX66, Q8IUU4, uc317tin.1, uc317tin.2, UNQ6503/PRO21380 UCSC ID: ENST00000332018.5_5 RefSeq Accession: NM_178540.5 Protein: P0C862 (aka C1T9A_HUMAN)

Gene Model Information


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Methods, Credits, and Use Restrictions


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