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

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Gene: Col27a1 (collagen type XXVII alpha 1 chain) Rattus norvegicus
Analyze
Symbol: Col27a1
Name: collagen type XXVII alpha 1 chain
RGD ID: 735115
Description: Predicted to be an extracellular matrix structural constituent conferring tensile strength. Predicted to be involved in skeletal system development. Predicted to act upstream of or within extracellular matrix organization and growth plate cartilage chondrocyte development. Predicted to be located in extracellular region. Predicted to be part of fibrillar collagen trimer. Predicted to be active in extracellular matrix. Orthologous to human COL27A1 (collagen type XXVII alpha 1 chain); INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 3,4-methylenedioxymethamphetamine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: collagen alpha-1(XXVII) chain; collagen type XXVII proalpha 1 chain; collagen, type XXVII, alpha 1; procollagen, type XXVII, alpha 1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8581,662,822 - 81,781,502 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl581,661,685 - 81,781,502 (+)EnsemblGRCr8
mRatBN7.2576,647,302 - 76,765,989 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl576,647,429 - 76,765,174 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx579,046,962 - 79,163,379 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0580,864,094 - 80,980,524 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0580,839,597 - 80,956,018 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0579,054,004 - 79,172,442 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl579,055,521 - 79,170,765 (+)Ensemblrn6Rnor6.0
Rnor_5.0583,168,893 - 83,286,676 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4580,198,078 - 80,316,354 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera575,584,269 - 75,698,202 (+)NCBICelera
RGSC_v3.1580,203,190 - 80,321,467 (+)NCBI
Cytogenetic Map5q24NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

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

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
3. Identification, characterization and expression analysis of a new fibrillar collagen gene, COL27A1. Pace JM, etal., Matrix Biol 2003 Mar;22(1):3-14.
4. GOA pipeline RGD automated data pipeline
5. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:17331945   PMID:22206015  


Genomics

Comparative Map Data
Col27a1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8581,662,822 - 81,781,502 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl581,661,685 - 81,781,502 (+)EnsemblGRCr8
mRatBN7.2576,647,302 - 76,765,989 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl576,647,429 - 76,765,174 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx579,046,962 - 79,163,379 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0580,864,094 - 80,980,524 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0580,839,597 - 80,956,018 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0579,054,004 - 79,172,442 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl579,055,521 - 79,170,765 (+)Ensemblrn6Rnor6.0
Rnor_5.0583,168,893 - 83,286,676 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4580,198,078 - 80,316,354 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera575,584,269 - 75,698,202 (+)NCBICelera
RGSC_v3.1580,203,190 - 80,321,467 (+)NCBI
Cytogenetic Map5q24NCBI
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 (+)Ensemblhg38GRCh38
GRCh379116,917,817 - 117,074,791 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 369115,958,052 - 116,112,796 (+)NCBIBuild 36Build 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
(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 EnsemblGRCm39
GRCm38463,214,009 - 63,334,991 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl463,214,004 - 63,334,991 (+)Ensemblmm10GRCm38
MGSCv37462,876,446 - 62,996,025 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36462,702,187 - 62,819,669 (+)NCBIMGSCv36mm8
Celera461,872,330 - 61,991,872 (+)NCBICelera
Cytogenetic Map4B3NCBI
cM Map433.96NCBI
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 (+)EnsemblpanPan2panpan1.1
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 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1166,815,437 - 66,950,500 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01169,536,838 - 69,671,970 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1169,538,549 - 69,670,526 (+)EnsemblROS_Cfam_1.0 Ensembl
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_1.0UU_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
SpeTri2.0 EnsemblNW_0049364873,487,734 - 3,601,796 (+)EnsemblSpeTri2.0 Ensembl
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 (+)EnsemblsusScr11Sscrofa11.1
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 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
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 1.0HetGla 1.0hetGla2

Variants

.
Variants in Col27a1
796 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:92
Count of miRNA genes:71
Interacting mature miRNAs:74
Transcripts:ENSRNOT00000010333
Prediction methods:Microtar, 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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1298067Scl15Serum cholesterol level QTL 154.80.001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)53801167083011670Rat
1300115Hrtrt7Heart rate QTL 72.76heart pumping trait (VT:2000009)heart rate (CMO:0000002)55266537294894052Rat
1357396Bw44Body weight QTL 444.19body mass (VT:0001259)body weight (CMO:0000012)573779642118779642Rat
1549845Scl44Serum cholesterol level QTL 446blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)544924861153890773Rat
6907115Mcs29Mammary carcinoma susceptibility QTL 29mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)53800433183004331Rat
61380Edpm5Estrogen-dependent pituitary mass QTL 54.50.92pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)573779642103472210Rat
70212Niddm25Non-insulin dependent diabetes mellitus QTL 253.54blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)538207390136631402Rat
61386Bp49Blood pressure QTL 4916.6cerebrum integrity trait (VT:0010549)brain infarction volume (CMO:0001013)565089051103648916Rat
1331801Rf33Renal function QTL 334.149kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)548523123134369373Rat
2302381Bw84Body weight QTL 844.47body mass (VT:0001259)body mass index (BMI) (CMO:0000105)573779642118779642Rat
1357402Bw46Body weight QTL 464.47body mass (VT:0001259)body mass index (BMI) (CMO:0000105)573779642118779642Rat
1598807Glom12Glomerulus QTL 122.7kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)53801167083011670Rat
1302786Kidm8Kidney mass QTL 828.15kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)53801167083011670Rat
61393Bp7Blood pressure QTL 74.50.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)565089051166764498Rat
1331782Rf36Renal function QTL 363.296kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)539019942102105896Rat
1578766Tcas11Tongue tumor susceptibility QTL 114.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)551657967166600247Rat
1576312Emca8Estrogen-induced mammary cancer QTL 84.1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)555124766172190305Rat
1641912Alcrsp18Alcohol response QTL 18response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)53998594884985948Rat
7394708Emca11Estrogen-induced mammary cancer QTL 11mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)573176602118176602Rat
1576317Eutr2Estrogen induced uterine response QTL 20.01uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)53952692484526924Rat
1331773Scl26Serum cholesterol level QTL 263.065blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)54852312391770353Rat
1578673Bmd13Bone mineral density QTL 134.9femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)569474415114474415Rat
70189Mcs5Mammary carcinoma susceptibility QTL 510.51mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)560601597137492949Rat
1331771Rf35Renal function QTL 354.36965kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)51001906491770353Rat
61359EaexExperimental allergic encephalomyelitis QTL x3nervous system integrity trait (VT:0010566)post-insult time to onset of experimental autoimmune encephalomyelitis (CMO:0001422)560511627105511627Rat
1354598Srn6Serum renin concentration QTL 63.8blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)574335621156302135Rat
2290448Scl54Serum cholesterol level QTL 542.93blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)536460764136631402Rat
61426Scl2Serum cholesterol level QTL 27.30.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)564589016109589016Rat
2290005Mcs24Mammary carcinoma susceptibility QTL 24mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)569835120114835120Rat
1331756Rf34Renal function QTL 344.16275kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)51001906487027358Rat
2306971Anxrr21Anxiety related response QTL 219.47fear/anxiety-related behavior trait (VT:1000241)number of entries into a discrete space in an experimental apparatus (CMO:0000960)570969494136328156Rat
2316954Rf57Renal function QTL 570kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)56458901693503770Rat
2312671Scl64Serum cholesterol level QTL 640.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)573779642118779642Rat
2316959Gluco59Glucose level QTL 594.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)556546393101546393Rat
2316957Pur21Proteinuria QTL 216.2urine protein amount (VT:0005160)urine protein level (CMO:0000591)56458901691762830Rat

Markers in Region
BE116809  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2576,670,772 - 76,670,924 (+)MAPPERmRatBN7.2
Rnor_6.0579,078,669 - 79,078,820NCBIRnor6.0
Rnor_5.0583,192,917 - 83,193,068UniSTSRnor5.0
RGSC_v3.4580,220,946 - 80,221,097UniSTSRGSC3.4
Celera575,604,679 - 75,604,830UniSTS
RH 3.4 Map5578.5UniSTS
Cytogenetic Map5q24UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 163 91 90 59 85 59 6 349 185 11 142 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000010333   ⟹   ENSRNOP00000010333
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl581,662,908 - 81,781,502 (+)Ensembl
mRatBN7.2 Ensembl576,647,429 - 76,765,174 (+)Ensembl
Rnor_6.0 Ensembl579,055,521 - 79,170,765 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000155205   ⟹   ENSRNOP00000108817
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl581,662,908 - 81,781,502 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000162794   ⟹   ENSRNOP00000104506
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl581,661,685 - 81,781,502 (+)Ensembl
RefSeq Acc Id: NM_001411859   ⟹   NP_001398788
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8581,662,908 - 81,781,502 (+)NCBI
mRatBN7.2576,647,384 - 76,765,989 (+)NCBI
RefSeq Acc Id: XM_039109470   ⟹   XP_038965398
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8581,662,822 - 81,756,750 (+)NCBI
mRatBN7.2576,647,302 - 76,741,172 (+)NCBI
RefSeq Acc Id: XM_039109471   ⟹   XP_038965399
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8581,702,342 - 81,781,500 (+)NCBI
mRatBN7.2576,686,821 - 76,765,159 (+)NCBI
RefSeq Acc Id: XM_039109472   ⟹   XP_038965400
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8581,702,338 - 81,781,500 (+)NCBI
mRatBN7.2576,686,817 - 76,765,159 (+)NCBI
RefSeq Acc Id: XM_039109473   ⟹   XP_038965401
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8581,720,346 - 81,781,500 (+)NCBI
mRatBN7.2576,704,824 - 76,765,159 (+)NCBI
RefSeq Acc Id: XM_063287351   ⟹   XP_063143421
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8581,662,823 - 81,765,695 (+)NCBI
RefSeq Acc Id: XM_063287352   ⟹   XP_063143422
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8581,671,922 - 81,781,500 (+)NCBI
RefSeq Acc Id: XR_005504389
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8581,662,822 - 81,748,684 (+)NCBI
mRatBN7.2576,647,302 - 76,733,174 (+)NCBI
Ensembl Acc Id: ENSRNOP00000010333   ⟸   ENSRNOT00000010333
RefSeq Acc Id: XP_038965398   ⟸   XM_039109470
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038965400   ⟸   XM_039109472
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038965399   ⟸   XM_039109471
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038965401   ⟸   XM_039109473
- Peptide Label: isoform X5
RefSeq Acc Id: NP_001398788   ⟸   NM_001411859
- Peptide Label: precursor
- UniProtKB: Q80ZF0 (UniProtKB/Swiss-Prot),   A0A8L2Q4D5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063143421   ⟸   XM_063287351
- Peptide Label: isoform X1
RefSeq Acc Id: XP_063143422   ⟸   XM_063287352
- Peptide Label: isoform X2
Ensembl Acc Id: ENSRNOP00000104506   ⟸   ENSRNOT00000162794
Ensembl Acc Id: ENSRNOP00000108817   ⟸   ENSRNOT00000155205
Protein Domains
Collagen-like   Fibrillar collagen NC1   Laminin G-like

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q80ZF0-F1-model_v2 AlphaFold Q80ZF0 1-1855 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:735115 AgrOrtholog
BioCyc Gene G2FUF-41074 BioCyc
Ensembl Genes ENSRNOG00000007657 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000010333 ENTREZGENE
Gene3D-CATH 2.60.120.1000 UniProtKB/Swiss-Prot
  2.60.120.200 UniProtKB/Swiss-Prot
InterPro Collagen UniProtKB/Swiss-Prot
  Collagen_Structural_Proteins UniProtKB/Swiss-Prot
  ConA-like_dom_sf UniProtKB/Swiss-Prot
  Fib_collagen_C UniProtKB/Swiss-Prot
  TSPN-like_N UniProtKB/Swiss-Prot
NCBI Gene 298101 ENTREZGENE
PANTHER COLLAGEN ALPHA-1(XXIII) CHAIN-LIKE ISOFORM X2 UniProtKB/Swiss-Prot
  SI:CH211-266K2.1 UniProtKB/Swiss-Prot
Pfam COLFI UniProtKB/Swiss-Prot
  Collagen UniProtKB/Swiss-Prot
PhenoGen Col27a1 PhenoGen
PROSITE NC1_FIB UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000007657 RatGTEx
SMART COLFI UniProtKB/Swiss-Prot
  TSPN UniProtKB/Swiss-Prot
Superfamily-SCOP SSF49899 UniProtKB/Swiss-Prot
UniProt A0A8L2Q4D5 ENTREZGENE, UniProtKB/TrEMBL
  A6J7X7_RAT UniProtKB/TrEMBL
  A6J7X8_RAT UniProtKB/TrEMBL
  CORA1_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-07-27 Col27a1  collagen type XXVII alpha 1 chain  Col27a1  collagen, type XXVII, alpha 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-10 Col27a1  collagen, type XXVII, alpha 1  Col27a1  procollagen, type XXVII, alpha 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-07-08 Col27a1  procollagen, type XXVII, alpha 1    collagen, type XXVII, alpha 1  Name updated 1299863 APPROVED