Human Gene CLIP4 (ENST00000320081.10_4) from GENCODE V47lift37

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Description: CAP-Gly domain containing linker protein family member 4, transcript variant 1 (from RefSeq NM_024692.6)
Gencode Transcript: ENST00000320081.10_4
Gencode Gene: ENSG00000115295.21_15
Transcript (Including UTRs)
Position: hg19 chr2:29,338,281-29,406,674 Size: 68,394 Total Exon Count: 16 Strand: +
Coding Region
Position: hg19 chr2:29,344,255-29,404,759 Size: 60,505 Coding Exon Count: 15

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 (chr2:29,338,281-29,406,674)			mRNA (may differ from genome)		Protein (705 aa)
Gene Sorter	Genome Browser	Other Species FASTA	VisiGene	Gene interactions	Table Schema
AlphaFold	BioGPS	Ensembl	Entrez Gene	ExonPrimer	GeneCards
HGNC	MGI	PubMed	UniProtKB	BioGrid CRISPR DB

Comments and Description Text from UniProtKB


	ID: CLIP4_HUMAN DESCRIPTION: RecName: Full=CAP-Gly domain-containing linker protein 4; AltName: Full=Restin-like protein 2; SIMILARITY: Contains 3 ANK repeats. SIMILARITY: Contains 3 CAP-Gly domains. SEQUENCE CAUTION: Sequence=BAB14974.1; Type=Erroneous initiation;

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 D001564 Benzo(a)pyrene D003993 Dibutyl Phthalate C111118 2',3,3',4',5-pentachloro-4-hydroxybiphenyl D015123 7,8-Dihydro-7,8-dihydroxybenzo(a)pyrene 9,10-oxide D015127 9,10-Dimethyl-1,2-benzanthracene C547126 AZM551248 D002104 Cadmium D002117 Calcitriol D003300 Copper D019327 Copper Sulfate more ... click here to view the complete list

Common Gene Haplotype Alleles


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


	Highest median expression: 19.39 RPKM in Muscle - Skeletal Total median expression: 469.82 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	-153.40	266	-0.577	Picture	PostScript	Text
3' UTR	-423.10	1915	-0.221	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
IPR002110 - Ankyrin_rpt
IPR020683 - Ankyrin_rpt-contain_dom
IPR000938 - CAP-Gly_domain

Pfam Domains:
PF01302 - CAP-Gly domain
PF12796 - Ankyrin repeats (3 copies)
PF13637 - Ankyrin repeats (many copies)

SCOP Domains:
74924 - Cap-Gly domain
48403 - Ankyrin repeat

Protein Data Bank (PDB) 3-D Structure
MuPIT help

2Z0W - X-ray MuPIT

ModBase Predicted Comparative 3D Structure on Q8N3C7


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

Gene Ontology (GO) Annotations with Structured Vocabulary


	Molecular Function: GO:0005515 protein binding Cellular Component: GO:0043231 intracellular membrane-bounded organelle

Descriptions from all associated GenBank mRNAs


	AF433661 - Homo sapiens unknown mRNA. AK302325 - Homo sapiens cDNA FLJ55798 complete cds, highly similar to Restin-like protein 2. AK291595 - Homo sapiens cDNA FLJ75496 complete cds, highly similar to Homo sapiens restin-like 2 (RSNL2), mRNA. AK057267 - Homo sapiens cDNA FLJ32705 fis, clone TESTI2000600, weakly similar to RESTIN. BC013862 - Homo sapiens CAP-GLY domain containing linker protein family, member 4, mRNA (cDNA clone IMAGE:3923805). AL834443 - Homo sapiens mRNA; cDNA DKFZp761O0610 (from clone DKFZp761O0610). AB209042 - Homo sapiens premature mRNA for hypothetical protein FLJ32705 variant. BC126167 - Homo sapiens CAP-GLY domain containing linker protein family, member 4, mRNA (cDNA clone MGC:161445 IMAGE:8991883), complete cds. BC136331 - Homo sapiens CAP-GLY domain containing linker protein family, member 4, mRNA (cDNA clone MGC:167941 IMAGE:9020318), complete cds. HQ258339 - Synthetic construct Homo sapiens clone IMAGE:100072648 CAP-GLY domain containing linker protein family, member 4 (CLIP4) (CLIP4) gene, encodes complete protein. KJ899560 - Synthetic construct Homo sapiens clone ccsbBroadEn_08954 CLIP4 gene, encodes complete protein. AK304384 - Homo sapiens cDNA FLJ55608 complete cds, highly similar to Restin-like protein 2. BC015310 - Homo sapiens CAP-GLY domain containing linker protein family, member 4, mRNA (cDNA clone IMAGE:4431888), partial cds. AK225074 - Homo sapiens mRNA for restin-like 2 variant, clone: CAS01594. AK024722 - Homo sapiens cDNA: FLJ21069 fis, clone CAS01594. CU677253 - Synthetic construct Homo sapiens gateway clone IMAGE:100019661 5' read CLIP4 mRNA. KJ906319 - Synthetic construct Homo sapiens clone ccsbBroadEn_15989 CLIP4 gene, encodes complete protein. BC107760 - Homo sapiens CAP-GLY domain containing linker protein family, member 4, mRNA (cDNA clone IMAGE:4616730), with apparent retained intron. JD167208 - Sequence 148232 from Patent EP1572962. JD558223 - Sequence 539247 from Patent EP1572962. JD333700 - Sequence 314724 from Patent EP1572962. AK023505 - Homo sapiens cDNA FLJ13443 fis, clone PLACE1002853.

Other Names for This Gene


	Alternate Gene Symbols: A0AV10, B2RMQ3, B7Z7N8, CLIP4_HUMAN, ENST00000320081.1, ENST00000320081.2, ENST00000320081.3, ENST00000320081.4, ENST00000320081.5, ENST00000320081.6, ENST00000320081.7, ENST00000320081.8, ENST00000320081.9, NM_024692, Q7Z4U3, Q8N3C7, Q96BR7, Q96MA5, Q9H7C0, RSNL2, uc317qui.1, uc317qui.2 UCSC ID: ENST00000320081.10_4 RefSeq Accession: NM_024692.6 Protein: Q8N3C7 (aka CLIP4_HUMAN)

Gene Model Information


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Methods, Credits, and Use Restrictions


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