Col27a1 (collagen, type XXVII, alpha 1) - Rat Genome Database

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Gene: Col27a1 (collagen, type XXVII, alpha 1) Mus musculus
Analyze
Symbol: Col27a1
Name: collagen, type XXVII, alpha 1
RGD ID: 1553742
MGI Page MGI
Description: An extracellular matrix structural constituent. Acts upstream of or within extracellular matrix organization and growth plate cartilage chondrocyte development. Located in collagen-containing extracellular matrix. Part of fibrillar collagen trimer. Is expressed in several structures, including alimentary system; limb mesenchyme; respiratory system; sensory organ; and skeletal system. Orthologous to human COL27A1 (collagen type XXVII alpha 1 chain).
Type: protein-coding
RefSeq Status: REVIEWED
Previously known as: 5730512J02Rik; AI449266; collagen alpha-1(XXVII) chain; mKIAA1870; procollagen, type XXVII, alpha 1
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39463,132,246 - 63,253,228 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl463,132,241 - 63,253,228 (+)EnsemblGRCm39 Ensembl
GRCm38463,214,009 - 63,334,991 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl463,214,004 - 63,334,991 (+)EnsemblGRCm38mm10GRCm38
MGSCv37462,876,446 - 62,996,025 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36462,702,187 - 62,819,669 (+)NCBIMGSCv36mm8
Celera461,872,330 - 61,991,872 (+)NCBICelera
Cytogenetic Map4B3NCBI
cM Map433.96NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,1-dichloroethene  (EXP)
1,2-dichloroethane  (EXP)
1,2-dimethylhydrazine  (EXP)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2-palmitoylglycerol  (ISO)
3,3',5,5'-tetrabromobisphenol A  (EXP)
3,4-methylenedioxymethamphetamine  (ISO)
3-chloropropane-1,2-diol  (EXP)
4,4'-sulfonyldiphenol  (EXP)
4-hydroxyphenyl retinamide  (EXP)
6-propyl-2-thiouracil  (ISO)
acetamide  (ISO)
acrylamide  (EXP)
aflatoxin B1  (ISO)
aldehydo-D-glucose  (EXP)
aldrin  (EXP)
all-trans-retinoic acid  (ISO)
allethrin  (ISO)
amiodarone  (ISO)
ammonium chloride  (ISO)
amphetamine  (ISO)
antirheumatic drug  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
benzo[a]pyrene  (EXP)
beta-naphthoflavone  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (EXP)
CGP 52608  (ISO)
choline  (EXP)
copper(II) sulfate  (ISO)
Cuprizon  (ISO)
curcumin  (ISO)
cyclosporin A  (ISO)
cyhalothrin  (ISO)
cypermethrin  (ISO)
D-glucose  (EXP)
dibutyl phthalate  (ISO)
dichloroacetic acid  (EXP)
dicrotophos  (ISO)
disodium selenite  (EXP)
dorsomorphin  (ISO)
doxorubicin  (ISO)
endosulfan  (ISO)
ethanol  (EXP)
fenvalerate  (ISO)
folic acid  (EXP)
fructose  (EXP)
fulvestrant  (ISO)
glucose  (EXP)
glycidol  (EXP)
L-methionine  (EXP)
leflunomide  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
N-nitrosodiethylamine  (ISO)
Nor-9-carboxy-delta9-THC  (ISO)
paracetamol  (ISO)
pentachlorophenol  (EXP)
perfluorooctane-1-sulfonic acid  (ISO)
phenobarbital  (EXP)
pirinixic acid  (EXP)
pyrethrins  (ISO)
resveratrol  (ISO)
SB 431542  (ISO)
sodium dichromate  (ISO)
sunitinib  (ISO)
tetrachloroethene  (EXP)
tetraphene  (EXP)
thioacetamide  (ISO)
trichostatin A  (ISO)
trimellitic anhydride  (EXP)
tris(2-butoxyethyl) phosphate  (ISO)
troglitazone  (EXP)
urethane  (ISO)
valproic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Functional annotation of a full-length mouse cDNA collection. Kawai J, etal., Nature. 2001 Feb 8;409(6821):685-90.
2. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
3. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
4. Identification, characterization and expression analysis of a new fibrillar collagen gene, COL27A1. Pace JM, etal., Matrix Biol 2003 Mar;22(1):3-14.
5. Mouse MP Annotation Import Pipeline RGD automated import pipeline
6. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:12477932   PMID:12766169   PMID:15368895   PMID:16141072   PMID:16141073   PMID:17331945   PMID:19414009   PMID:19884258   PMID:21267068  
PMID:21677750   PMID:21873635   PMID:22159717   PMID:22206015   PMID:26073538   PMID:28071719   PMID:32098917   PMID:33230847  


Genomics

Comparative Map Data
Col27a1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39463,132,246 - 63,253,228 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl463,132,241 - 63,253,228 (+)EnsemblGRCm39 Ensembl
GRCm38463,214,009 - 63,334,991 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl463,214,004 - 63,334,991 (+)EnsemblGRCm38mm10GRCm38
MGSCv37462,876,446 - 62,996,025 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36462,702,187 - 62,819,669 (+)NCBIMGSCv36mm8
Celera461,872,330 - 61,991,872 (+)NCBICelera
Cytogenetic Map4B3NCBI
cM Map433.96NCBI
COL27A1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh389114,154,098 - 114,312,511 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl9114,155,537 - 114,312,511 (+)EnsemblGRCh38hg38GRCh38
GRCh379116,917,817 - 117,074,791 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 369115,958,052 - 116,112,796 (+)NCBINCBI36Build 36hg18NCBI36
Build 349113,997,784 - 114,152,529NCBI
Celera987,566,107 - 87,720,603 (+)NCBICelera
Cytogenetic Map9q32NCBI
HuRef986,524,630 - 86,679,150 (+)NCBIHuRef
CHM1_19117,064,706 - 117,219,685 (+)NCBICHM1_1
T2T-CHM13v2.09126,352,719 - 126,511,655 (+)NCBIT2T-CHM13v2.0
Col27a1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8581,662,822 - 81,781,502 (+)NCBIGRCr8
mRatBN7.2576,647,302 - 76,765,989 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl576,647,429 - 76,765,174 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx579,046,962 - 79,163,379 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0580,864,094 - 80,980,524 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0580,839,597 - 80,956,018 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0579,054,004 - 79,172,442 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl579,055,521 - 79,170,765 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0583,168,893 - 83,286,676 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4580,198,078 - 80,316,354 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1580,203,190 - 80,321,467 (+)NCBI
Celera575,584,269 - 75,698,202 (+)NCBICelera
Cytogenetic Map5q24NCBI
Col27a1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495541913,289,006 - 13,411,118 (-)NCBIChiLan1.0ChiLan1.0
COL27A1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21125,064,772 - 25,221,614 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1925,067,145 - 25,223,942 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0985,252,277 - 85,410,714 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.19113,619,322 - 113,777,099 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl9113,627,633 - 113,775,284 (+)Ensemblpanpan1.1panPan2
COL27A1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11168,413,101 - 68,548,408 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1168,420,263 - 68,546,947 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1166,815,437 - 66,950,500 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01169,536,838 - 69,671,970 (+)NCBIROS_Cfam_1.0
UMICH_Zoey_3.11168,052,533 - 68,187,417 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01168,083,568 - 68,228,679 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01168,822,715 - 68,957,841 (+)NCBIUU_Cfam_GSD_1.0
Col27a1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947183,711,795 - 183,833,263 (+)NCBIHiC_Itri_2
SpeTri2.0NW_0049364873,487,776 - 3,601,779 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
COL27A1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1254,770,093 - 254,923,823 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11254,768,576 - 254,924,893 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21285,841,755 - 285,901,568 (+)NCBISscrofa10.2Sscrofa10.2susScr3
COL27A1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11225,272,617 - 25,431,308 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1225,272,609 - 25,429,086 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603517,388,410 - 17,548,127 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Col27a1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462476020,861,505 - 20,979,826 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Col27a1
4158 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:2075
Count of miRNA genes:625
Interacting mature miRNAs:813
Transcripts:ENSMUST00000036300, ENSMUST00000125504, ENSMUST00000148751, ENSMUST00000149856, ENSMUST00000151992, ENSMUST00000183913, ENSMUST00000184067
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.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
11567249Elorr3_methanol induced loss of righting response 3 (mouse)43722677156268235Mouse
4142318Lyr2_mlymphoma resistance 2 (mouse)Not determined1401045763283678Mouse
4142047Mvwf3_mmodifier of von Willebrand factor 3 (mouse)Not determined14010457117072206Mouse
4141911W6q15_mweight 6 weeks QTL 15 (mouse)Not determined1789261688982216Mouse
39128211Lwq22_mliver weight QTL 22 (mouse)41789261688982216Mouse
1357453Kidq4_mkidney weight QTL 4 (mouse)Not determined41789261688982216Mouse
1301990Arvm1_mautoimmune renal vasculitis 1 (mouse)Not determined42933264663332776Mouse
1301792Hdlq10_mHDL QTL 10 (mouse)Not determined43585970769859853Mouse
1300977Mopkd1_mmodifier of polycystic kidney disease progression 1 (mouse)Not determined43655083970550967Mouse
26884449Sklq2_mskull length QTL 2, 5 week (mouse)436700000128993793Mouse
1302116Bbaa1_mB.burgdorferi-associated arthritis 1 (mouse)Not determined43825093072251078Mouse
10412178Habiir2_mhyperoxic acute lung injury imprinted region 2 (mouse)Not determined43945212663283678Mouse
1301786Bpq3_mblood pressure QTL 3 (mouse)Not determined44240224076402381Mouse
27226724Tibw2_mtibia width 2, proximal, 10 week (mouse)443000000108357197Mouse
1301941Mmtg1_mmodifier of mammary tumor growth 1 (mouse)Not determined44565844283099157Mouse
1558948Ath8_matherosclerosis 8 (mouse)Not determined445658442105156995Mouse
1357895Ctrcts_mcataract severity (mouse)Not determined445709925138342753Mouse
12879977Bod2_mbone length and organs 2 (mouse)44628353180283678Mouse
10043880Adip23_madiposity 23 (mouse)Not determined44628353180283678Mouse
1300966Pabr2_mplasma apolipoprotein B (human) regulator 2 (mouse)Not determined446332646105801860Mouse
10449022Aanq1_maristolochic acid nephrotoxicity QTL 1 (mouse)44660382680603826Mouse
11532714Sluc43_msusceptibility to lung cancer 43 (mouse)446642108123127211Mouse
11532688Mh_mmodifier of hemostasis (mouse)44830477582304775Mouse
25314308Mlh1fc1_mMLH1 foci count 1 (mouse)44850000076918237Mouse
1301995Lprm1_mlymphoproliferation modifier 1 (mouse)Not determined45010026284100408Mouse
1301213Lgth3_mbody length 3 (mouse)Not determined45010026284100408Mouse
13207572Spir2_mStreptococcus pneumoniae infection resistance 2 (mouse)45068279588510637Mouse
1301033Abbp2_mA/J and C57BL/6 blood pressure 2 (mouse)Not determined45355083993763305Mouse
4141900Skts-fp1_mskin tumor susceptibility in FVB and PWK 1 (mouse)Not determined453550839124055180Mouse
26884434Zlq1_mzygomatic length QTL 1, 5 week (mouse)453700000103257197Mouse
13524838Hbasrq1a_mhabituation of the acoustic startle response QTL 1a (mouse)45447158988471589Mouse
13524841Hbasrq1_mhabituation of the acoustic startle response QTL 1 (mouse)45447158988471589Mouse
27095905Scvln3_msacral vertebrae length 2, 5 week (mouse)455600000128993793Mouse
27095934Ulnl2_mulna length 2, 5 week (mouse)45770000094788237Mouse
26884437Sklq13_mskull length QTL 13, 16 week (mouse)457700000155684457Mouse
10043964Obq26_mobesity QTL 26 (mouse)Not determined45904725193047251Mouse
1357507Synch2_msynechia 2 (mouse)Not determined46014527794145424Mouse
1301190Cd4ts2_mCD4 T cell subset 2 (mouse)Not determined46014527794145424Mouse
1357443Lhyp_mlung hyperpermeability (mouse)Not determined46045401166764818Mouse
25394561Skmw53_mskeletal muscle weight 53, TA (mouse)46213829369838031Mouse

Markers in Region
Col27a1  
Mouse AssemblyChrPosition (strand)SourceJBrowse
MGSCv37462,941,909 - 62,942,331UniSTSGRCm37
Celera461,937,727 - 61,938,149UniSTS
Cytogenetic Map4C1UniSTS
cM Map4 UniSTS
AI449266  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38463,334,763 - 63,334,884UniSTSGRCm38
MGSCv37462,995,797 - 62,995,918UniSTSGRCm37
Celera461,991,644 - 61,991,765UniSTS
Cytogenetic Map4C1UniSTS
Whitehead/MRC_RH41071.1UniSTS
Col27a1  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38463,280,875 - 63,281,297UniSTSGRCm38
MGSCv37462,941,909 - 62,942,331UniSTSGRCm37
Celera461,937,727 - 61,938,149UniSTS
Cytogenetic Map4C1UniSTS
Col27a1  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map4C1UniSTS
cM Map4 UniSTS


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NM_025685 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006538035 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006538039 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_011250057 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_011250058 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_030253629 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_030253630 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_030253631 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_030253632 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_030253634 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_036164207 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_003954978 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_390328 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AK003879 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK017766 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK030038 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK053733 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK076297 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK157951 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK173283 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AL683828 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AL691496 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY167568 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC038041 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC039222 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC049173 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH466527 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

RefSeq Acc Id: ENSMUST00000036300   ⟹   ENSMUSP00000043816
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl463,133,672 - 63,253,228 (+)Ensembl
GRCm38.p6 Ensembl463,215,435 - 63,334,991 (+)Ensembl
RefSeq Acc Id: ENSMUST00000125504
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl463,132,241 - 63,211,068 (+)Ensembl
GRCm38.p6 Ensembl463,214,004 - 63,292,831 (+)Ensembl
RefSeq Acc Id: ENSMUST00000148751
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl463,133,649 - 63,193,330 (+)Ensembl
GRCm38.p6 Ensembl463,215,412 - 63,275,093 (+)Ensembl
RefSeq Acc Id: ENSMUST00000149856
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl463,201,750 - 63,251,986 (+)Ensembl
GRCm38.p6 Ensembl463,283,513 - 63,333,749 (+)Ensembl
RefSeq Acc Id: ENSMUST00000151992
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl463,249,230 - 63,252,375 (+)Ensembl
GRCm38.p6 Ensembl463,330,993 - 63,334,138 (+)Ensembl
RefSeq Acc Id: ENSMUST00000183913   ⟹   ENSMUSP00000139182
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl463,200,904 - 63,251,957 (+)Ensembl
GRCm38.p6 Ensembl463,282,667 - 63,333,720 (+)Ensembl
RefSeq Acc Id: ENSMUST00000184067   ⟹   ENSMUSP00000139173
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl463,152,523 - 63,251,950 (+)Ensembl
GRCm38.p6 Ensembl463,234,286 - 63,333,713 (+)Ensembl
RefSeq Acc Id: NM_025685   ⟹   NP_079961
RefSeq Status: REVIEWED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39463,133,649 - 63,253,228 (+)NCBI
GRCm38463,215,412 - 63,334,991 (+)NCBI
MGSCv37462,876,446 - 62,996,025 (+)RGD
Celera461,872,330 - 61,991,872 (+)RGD
cM Map4 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_006538035   ⟹   XP_006538098
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39463,133,563 - 63,253,228 (+)NCBI
GRCm38463,215,323 - 63,334,991 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006538039   ⟹   XP_006538102
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39463,133,559 - 63,218,884 (+)NCBI
GRCm38463,215,320 - 63,300,649 (+)NCBI
Sequence:
RefSeq Acc Id: XM_011250057   ⟹   XP_011248359
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39463,133,559 - 63,231,916 (+)NCBI
GRCm38463,215,319 - 63,313,679 (+)NCBI
Sequence:
RefSeq Acc Id: XM_011250058   ⟹   XP_011248360
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39463,133,560 - 63,218,883 (+)NCBI
GRCm38463,215,320 - 63,300,649 (+)NCBI
Sequence:
RefSeq Acc Id: XM_030253629   ⟹   XP_030109489
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39463,132,246 - 63,252,202 (+)NCBI
GRCm38463,214,009 - 63,333,965 (+)NCBI
Sequence:
RefSeq Acc Id: XM_030253630   ⟹   XP_030109490
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39463,140,066 - 63,252,202 (+)NCBI
GRCm38463,221,824 - 63,333,965 (+)NCBI
Sequence:
RefSeq Acc Id: XM_030253631   ⟹   XP_030109491
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39463,133,558 - 63,242,719 (+)NCBI
GRCm38463,215,318 - 63,324,482 (+)NCBI
Sequence:
RefSeq Acc Id: XM_030253632   ⟹   XP_030109492
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39463,172,933 - 63,252,202 (+)NCBI
GRCm38463,254,696 - 63,333,965 (+)NCBI
Sequence:
RefSeq Acc Id: XM_030253634   ⟹   XP_030109494
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39463,172,934 - 63,252,202 (+)NCBI
GRCm38463,254,697 - 63,333,965 (+)NCBI
Sequence:
RefSeq Acc Id: XM_036164207   ⟹   XP_036020100
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39463,133,563 - 63,252,202 (+)NCBI
Sequence:
RefSeq Acc Id: XR_003954978
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39463,133,560 - 63,224,976 (+)NCBI
GRCm38463,215,321 - 63,306,739 (+)NCBI
Sequence:
RefSeq Acc Id: XR_390328
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39463,133,558 - 63,253,228 (+)NCBI
GRCm38463,215,319 - 63,334,991 (+)NCBI
Sequence:
RefSeq Acc Id: NP_079961   ⟸   NM_025685
- Peptide Label: preproprotein
- UniProtKB: Q69Z83 (UniProtKB/Swiss-Prot),   Q80UA8 (UniProtKB/Swiss-Prot),   Q5QNQ9 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006538102   ⟸   XM_006538039
- Peptide Label: isoform X9
- Sequence:
RefSeq Acc Id: XP_006538098   ⟸   XM_006538035
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_011248359   ⟸   XM_011250057
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_011248360   ⟸   XM_011250058
- Peptide Label: isoform X8
- Sequence:
RefSeq Acc Id: XP_030109489   ⟸   XM_030253629
- Peptide Label: isoform X2
RefSeq Acc Id: XP_030109491   ⟸   XM_030253631
- Peptide Label: isoform X5
RefSeq Acc Id: XP_030109490   ⟸   XM_030253630
- Peptide Label: isoform X4
RefSeq Acc Id: XP_030109492   ⟸   XM_030253632
- Peptide Label: isoform X7
RefSeq Acc Id: XP_030109494   ⟸   XM_030253634
- Peptide Label: isoform X10
RefSeq Acc Id: ENSMUSP00000139173   ⟸   ENSMUST00000184067
RefSeq Acc Id: ENSMUSP00000139182   ⟸   ENSMUST00000183913
RefSeq Acc Id: ENSMUSP00000043816   ⟸   ENSMUST00000036300
RefSeq Acc Id: XP_036020100   ⟸   XM_036164207
- Peptide Label: isoform X3
Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q5QNQ9-F1-model_v2 AlphaFold Q5QNQ9 1-1845 view protein structure

Promoters
RGD ID:6835075
Promoter ID:MM_KWN:37987
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Kidney
Transcripts:ENSMUST00000036300,   OTTMUST00000054415
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36462,875,331 - 62,875,831 (+)MPROMDB
RGD ID:6835686
Promoter ID:MM_KWN:37992
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Kidney,   Liver
Transcripts:UC008TFW.1
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36462,991,331 - 62,991,892 (+)MPROMDB
RGD ID:6883634
Promoter ID:EPDNEW_M5268
Type:single initiation site
Name:Col27a1_1
Description:Mus musculus collagen, type XXVII, alpha 1 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M5269  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38463,215,412 - 63,215,472EPDNEW
RGD ID:6883636
Promoter ID:EPDNEW_M5269
Type:single initiation site
Name:Col27a1_2
Description:Mus musculus collagen, type XXVII, alpha 1 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M5268  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38463,298,665 - 63,298,725EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:2672118 AgrOrtholog
Ensembl Genes ENSMUSG00000045672 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000036300 ENTREZGENE
  ENSMUST00000036300.13 UniProtKB/Swiss-Prot
  ENSMUST00000183913.8 UniProtKB/TrEMBL
  ENSMUST00000184067.8 UniProtKB/TrEMBL
Gene3D-CATH 2.60.120.1000 UniProtKB/Swiss-Prot
  2.60.120.200 UniProtKB/Swiss-Prot
InterPro Collagen UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ConA-like_dom_sf UniProtKB/Swiss-Prot
  Fib_collagen_C UniProtKB/Swiss-Prot
  TSPN-like_N UniProtKB/Swiss-Prot
KEGG Report mmu:373864 UniProtKB/Swiss-Prot
MGD MGI:2672118 ENTREZGENE
NCBI Gene 373864 ENTREZGENE
PANTHER COLLAGEN ALPHA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  COLLAGEN ALPHA-1(IV) CHAIN UniProtKB/TrEMBL
  COLLAGEN ALPHA-1(XXVII) CHAIN UniProtKB/Swiss-Prot
  COLLAGEN ALPHA-1(XXVII) CHAIN UniProtKB/TrEMBL
Pfam COLFI UniProtKB/Swiss-Prot
  Collagen UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Col27a1 PhenoGen
PROSITE NC1_FIB UniProtKB/Swiss-Prot
SMART COLFI UniProtKB/Swiss-Prot
  TSPN UniProtKB/Swiss-Prot
Superfamily-SCOP SSF49899 UniProtKB/Swiss-Prot
UniProt CORA1_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE
  Q69Z83 ENTREZGENE
  Q80UA8 ENTREZGENE
  V9GXJ0_MOUSE UniProtKB/TrEMBL
  V9GXJ7_MOUSE UniProtKB/TrEMBL
UniProt Secondary Q69Z83 UniProtKB/Swiss-Prot
  Q80UA8 UniProtKB/Swiss-Prot