Clip2 (CAP-GLY domain containing linker protein 2) - Rat Genome Database
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Gene: Clip2 (CAP-GLY domain containing linker protein 2) Mus musculus
Analyze
Symbol: Clip2
Name: CAP-GLY domain containing linker protein 2
RGD ID: 62311
MGI Page MGI
Description: Is expressed in several structures, including alimentary system; branchial arch; central nervous system; limb; and trigeminal nerve. Used to study Williams-Beuren syndrome. Orthologous to human CLIP2 (CAP-Gly domain containing linker protein 2); INTERACTS WITH 1,2-dimethylhydrazine; 2,3,7,8-tetrachlorodibenzodioxine; benzo[a]pyrene.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: B230327O20; CAP-Gly domain-containing linker protein 2; CLIP-; CLIP-115; Clip1; Cyl; Cyln2; cytoplasmic linker 2; cytoplasmic linker protein 1, 115 kDa; cytoplasmic linker protein 115; cytoplasmic linker protein 2; mKIAA0291; wbscr4; WSC; WSCR4
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm38 - Mouse Genome Assembly GRCm38
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395134,518,237 - 134,582,922 (-)NCBIGRCm39mm39
GRCm39 Ensembl5134,518,237 - 134,581,288 (-)Ensembl
GRCm385134,489,383 - 134,553,767 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5134,489,383 - 134,552,434 (-)EnsemblGRCm38mm10GRCm38
MGSCv375134,965,256 - 135,028,304 (-)NCBIGRCm37mm9NCBIm37
MGSCv365134,774,013 - 134,837,061 (-)NCBImm8
Celera5131,497,085 - 131,560,139 (-)NCBICelera
Cytogenetic Map5G2NCBI
cM Map574.63NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

Additional References at PubMed
PMID:9799601   PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:11352562   PMID:11779826   PMID:12003824   PMID:12477932   PMID:12915453   PMID:15368895   PMID:15472464  
PMID:15489334   PMID:15797708   PMID:16141072   PMID:16141073   PMID:16148041   PMID:16954346   PMID:16959763   PMID:17114649   PMID:17270452   PMID:17967808   PMID:18448421   PMID:18799693  
PMID:20059953   PMID:20471267   PMID:21267068   PMID:21677750   PMID:21873635   PMID:22851317   PMID:23482493   PMID:26514267   PMID:27565344   PMID:28671696   PMID:29439133   PMID:32325033  
PMID:32581705  


Genomics

Comparative Map Data
Clip2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395134,518,237 - 134,582,922 (-)NCBIGRCm39mm39
GRCm39 Ensembl5134,518,237 - 134,581,288 (-)Ensembl
GRCm385134,489,383 - 134,553,767 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5134,489,383 - 134,552,434 (-)EnsemblGRCm38mm10GRCm38
MGSCv375134,965,256 - 135,028,304 (-)NCBIGRCm37mm9NCBIm37
MGSCv365134,774,013 - 134,837,061 (-)NCBImm8
Celera5131,497,085 - 131,560,139 (-)NCBICelera
Cytogenetic Map5G2NCBI
cM Map574.63NCBI
CLIP2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl774,289,475 - 74,405,943 (+)EnsemblGRCh38hg38GRCh38
GRCh38.p13 Ensembl774,289,407 - 74,405,935 (+)EnsemblGRCh38hg38GRCh38
GRCh38774,289,407 - 74,405,943 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37773,703,737 - 73,820,265 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36773,341,741 - 73,458,209 (+)NCBINCBI36hg18NCBI36
Build 34773,148,455 - 73,264,915NCBI
Celera769,183,344 - 69,299,516 (+)NCBI
Cytogenetic Map7q11.23NCBI
HuRef769,585,136 - 69,702,500 (+)NCBIHuRef
CHM1_1773,848,915 - 73,965,381 (+)NCBICHM1_1
CRA_TCAGchr7v2773,036,877 - 73,153,345 (+)NCBI
Clip2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21222,163,044 - 22,227,023 (+)NCBI
Rnor_6.0 Ensembl1225,173,005 - 25,237,009 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01225,172,957 - 25,236,935 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01227,173,358 - 27,237,330 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41223,228,309 - 23,292,105 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11223,088,866 - 23,152,661 (+)NCBI
Celera1223,926,969 - 23,990,763 (+)NCBICelera
Cytogenetic Map12q12NCBI
Clip2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545613,594,336 - 13,626,012 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495545613,593,322 - 13,631,809 (-)NCBIChiLan1.0ChiLan1.0
CLIP2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1781,465,835 - 81,552,522 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl781,465,901 - 81,550,422 (+)Ensemblpanpan1.1panPan2
CLIP2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl66,030,793 - 6,081,420 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.166,029,072 - 6,089,974 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Clip2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049365433,333,603 - 3,375,965 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CLIP2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1311,419,446 - 11,505,417 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2311,113,365 - 11,159,189 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CLIP2
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1288,692,837 - 8,792,668 (-)NCBI
ChlSab1.1 Ensembl288,690,868 - 8,792,555 (-)Ensembl
Clip2
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474013,674,727 - 13,716,826 (-)NCBI

Position Markers
Cyln2  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm385134,489,632 - 134,490,091UniSTSGRCm38
MGSCv375134,965,502 - 134,965,961UniSTSGRCm37
Celera5131,497,331 - 131,497,790UniSTS
Cytogenetic Map5G2UniSTS
cM Map574.0UniSTS


QTLs in Region (GRCm38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
11341716Rvfs3_mRift Valley fever susceptibility 3 (mouse)526236236138457140Mouse
27226719Tibw6_mtibia width 6, proximal, 16 week (mouse)572700000140000000Mouse
1301362Prnr1_mprion resistance 1 (mouse)Not determined589271017146851125Mouse
12904945Tammq2_mtibialis anterior muscle mass QTL 2 (mouse)5100527900134527900Mouse
12904959Smmq1_msoleus muscle mass QTL 1 (mouse)5100527900134527900Mouse
12859290Criq2_mCitrobacter rodentium infection QTL 2 (mouse)5101194514135194514Mouse
1301624Aevm2_mautoimmune extremity vasculitis in MRL mice 2 (mouse)Not determined5101725767135725963Mouse
14746986Manh58_mmandible shape 58 (mouse)5102308218136308218Mouse
11532736Sluc33b_msusceptibility to lung cancer 33b (mouse)5102806972136807131Mouse
10412202Bbaa26_mB.burgdorferi-associated arthritis 26 (mouse)Not determined5104435822138557193Mouse
10412239Alpq7_malcohol preference QTL 7 (mouse)Not determined5104567876138567876Mouse
4142473Chlq11_mcirculating hormone level QTL 11 (mouse)Not determined5107829235141829348Mouse
10043890Trigq4_mtriglyceride QTL 4 (mouse)Not determined5107829235141829348Mouse
13464243Ahl20_mage related hearing loss, early onset 20 (mouse)5107829235141829348Mouse
10412197Bbaa25_mB.burgdorferi-associated arthritis 25 (mouse)Not determined5109090176143090317Mouse
13464251Ahl21_mage related hearing loss, early onset 21 (mouse)5109090176143090317Mouse
1301543Hypch_mhypercholesterolemia (mouse)Not determined5109090758139133150Mouse
1300913Bwefm_mbody weight females and males day 10 (mouse)Not determined5109362284143362395Mouse
1301102Cia14_mcollagen induced arthritis 14 (mouse)Not determined5113172519138557193Mouse
1300827Cora1_mcorrelation in cytokine production 1 (mouse)Not determined5115128044149128176Mouse
1301226Bbaa2_mB.burgdorferi-associated arthritis 2 (mouse)Not determined5115128044149128176Mouse
1301857Bglq14_mbody growth late QTL 14 (mouse)Not determined5118920110151834684Mouse
10412191Bbaa24_mB.burgdorferi-associated arthritis 24 (mouse)Not determined5119806972141714711Mouse
4141081Nidd7k_mNidd7 on KK-A (mouse)Not determined119806972149423861Mouse
11528552Scram1_mspinal cord resistance to astrocytoma modifier 1 (mouse)5121457140151834684Mouse
1301986Bpq4_mblood pressure QTL 4 (mouse)Not determined5121556974151834684Mouse
1302079Lbw3_mlupus NZB x NZW 3 (mouse)Not determined5124714580151834684Mouse
1301715Elmaz2_melevated maze behavior 2 (mouse)Not determined5125101165141714711Mouse
1301363Pbwg13_mpostnatal body weight growth 13 (mouse)Not determined5125147702151834684Mouse
4141218Ath24_matherosclerosis 24 (mouse)Not determined129583274151834684Mouse
12880406Jcdq2_mjoint cartilage degeneration QTL 2 (mouse)5129851021151834684Mouse
11049557Lmr26_mleishmaniasis resistance 26 (mouse)5134002093151834684Mouse

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1486
Count of miRNA genes:403
Interacting mature miRNAs:487
Transcripts:ENSMUST00000036999, ENSMUST00000100647
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001039162 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_009990 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_036165158 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_003955655 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_004942523 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC166938 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC167419 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF289664 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF289667 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ228863 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ228864 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ228865 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ228866 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ228867 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ228868 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ228869 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ228870 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ228871 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ228872 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ228873 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ228874 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ228875 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ228876 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ228877 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ228878 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ228879 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ228880 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK045967 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK172928 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC039162 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC053048 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC100553 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC121191 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH466529 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSMUST00000036999   ⟹   ENSMUSP00000037431
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl5134,489,383 - 134,552,434 (-)Ensembl
RefSeq Acc Id: ENSMUST00000100647   ⟹   ENSMUSP00000098212
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl5134,489,387 - 134,552,434 (-)Ensembl
RefSeq Acc Id: ENSMUST00000202408
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl5134,513,807 - 134,516,278 (-)Ensembl
RefSeq Acc Id: NM_001039162   ⟹   NP_001034251
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm395134,518,237 - 134,581,288 (-)NCBI
GRCm385134,489,383 - 134,552,434 (-)NCBI
MGSCv375134,965,256 - 135,028,304 (-)RGD
Celera5131,497,082 - 131,560,139 (-)NCBI
cM Map5 ENTREZGENE
Sequence:
RefSeq Acc Id: NM_009990   ⟹   NP_034120
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm395134,518,237 - 134,581,288 (-)NCBI
GRCm385134,489,383 - 134,552,434 (-)NCBI
MGSCv375134,965,256 - 135,028,304 (-)RGD
Celera5131,497,082 - 131,560,139 (-)NCBI
cM Map5 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_036165158   ⟹   XP_036021051
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm395134,525,709 - 134,582,922 (-)NCBI
RefSeq Acc Id: XR_003955655
RefSeq Status:
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm395134,518,237 - 134,582,922 (-)NCBI
GRCm385134,489,383 - 134,553,767 (-)NCBI
Sequence:
RefSeq Acc Id: XR_004942523
RefSeq Status:
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm395134,518,237 - 134,582,922 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001034251   ⟸   NM_001039162
- Peptide Label: isoform b
- UniProtKB: Q9Z0H8 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_034120   ⟸   NM_009990
- Peptide Label: isoform a
- UniProtKB: Q9Z0H8 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSMUSP00000037431   ⟸   ENSMUST00000036999
RefSeq Acc Id: ENSMUSP00000098212   ⟸   ENSMUST00000100647
RefSeq Acc Id: XP_036021051   ⟸   XM_036165158
- Peptide Label: isoform X1
Protein Domains
CAP-Gly

Promoters
RGD ID:6888260
Promoter ID:EPDNEW_M7581
Type:initiation region
Name:Clip2_1
Description:Mus musculus CAP-GLY domain containing linker protein 2 , transcriptvariant 2, mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm385134,552,431 - 134,552,491EPDNEW
RGD ID:6847895
Promoter ID:MM_ACW:39739
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:BoneMarrow_4Hour,   Brain
Transcripts:CLIP2.CSEP07-UNSPLICED
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv365134,978,316 - 134,978,816 (-)MPROMDB
RGD ID:6837271
Promoter ID:MM_KWN:44304
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   Lung,   MEF_B4,   MEF_B6
Transcripts:NM_001039162,   NM_009990
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv365135,027,956 - 135,028,497 (-)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1313136 AgrOrtholog
Ensembl Genes ENSMUSG00000063146 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSMUSP00000037431 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUSP00000098212 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000036999 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUST00000100647 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 2.30.30.190 UniProtKB/Swiss-Prot
InterPro CAP-Gly_dom_sf UniProtKB/Swiss-Prot
  CAP-Gly_domain UniProtKB/Swiss-Prot
  CLIP2 UniProtKB/Swiss-Prot
KEGG Report mmu:269713 UniProtKB/Swiss-Prot
MGD MGI:1313136 ENTREZGENE
NCBI Gene 269713 ENTREZGENE
PANTHER PTHR18916:SF10 UniProtKB/Swiss-Prot
Pfam CAP_GLY UniProtKB/Swiss-Prot
PhenoGen Clip2 PhenoGen
PROSITE CAP_GLY_1 UniProtKB/Swiss-Prot
  CAP_GLY_2 UniProtKB/Swiss-Prot
SMART CAP_GLY UniProtKB/Swiss-Prot
Superfamily-SCOP SSF74924 UniProtKB/Swiss-Prot
UniProt CLIP2_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary Q7TSI9 UniProtKB/Swiss-Prot
  Q8CHU1 UniProtKB/Swiss-Prot
  Q9EP81 UniProtKB/Swiss-Prot