Col25a1 (collagen type XXV alpha 1 chain) - Rat Genome Database

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Gene: Col25a1 (collagen type XXV alpha 1 chain) Rattus norvegicus
Analyze
Symbol: Col25a1
Name: collagen type XXV alpha 1 chain
RGD ID: 1590105
Description: Predicted to enable amyloid-beta binding activity; heparin binding activity; and identical protein binding activity. Predicted to act upstream of or within axonogenesis involved in innervation. Predicted to be located in extracellular space and plasma membrane. Human ortholog(s) of this gene implicated in congenital fibrosis of the extraocular muscles 5. Orthologous to human COL25A1 (collagen type XXV alpha 1 chain); INTERACTS WITH 17alpha-ethynylestradiol; atrazine; bisphenol A.
Type: protein-coding
RefSeq Status: MODEL
Previously known as: collagen alpha-1(XXV) chain; collagen alpha-1(XXV) chain-like; collagen, type XXV, alpha 1; LOC102553088; LOC687064; similar to collagen, type XXV, alpha 1 isoform 1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82221,429,378 - 221,828,536 (+)NCBIGRCr8
mRatBN7.22218,755,152 - 219,154,348 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2218,755,691 - 219,153,501 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.02235,515,364 - 235,705,448 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2235,596,123 - 235,715,057 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02254,067,074 - 254,256,966 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera2211,033,464 - 211,420,527 (+)NCBICelera
Cytogenetic Map2q43NCBI
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

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. GOA pipeline RGD automated data pipeline
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:11927537   PMID:15215182   PMID:15522881   PMID:15615705   PMID:24453327  


Genomics

Comparative Map Data
Col25a1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82221,429,378 - 221,828,536 (+)NCBIGRCr8
mRatBN7.22218,755,152 - 219,154,348 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2218,755,691 - 219,153,501 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.02235,515,364 - 235,705,448 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2235,596,123 - 235,715,057 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02254,067,074 - 254,256,966 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera2211,033,464 - 211,420,527 (+)NCBICelera
Cytogenetic Map2q43NCBI
COL25A1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh384108,808,725 - 109,302,658 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl4108,808,725 - 109,302,752 (-)EnsemblGRCh38hg38GRCh38
GRCh374109,729,881 - 110,223,814 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 364109,954,421 - 110,443,248 (-)NCBINCBI36Build 36hg18NCBI36
Celera4107,029,732 - 107,518,680 (-)NCBICelera
Cytogenetic Map4q25NCBI
HuRef4105,464,237 - 105,956,593 (-)NCBIHuRef
CHM1_14109,708,453 - 110,200,435 (-)NCBICHM1_1
T2T-CHM13v2.04112,110,611 - 112,604,870 (-)NCBIT2T-CHM13v2.0
Col25a1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm393129,973,992 - 130,393,533 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl3129,925,150 - 130,393,526 (+)EnsemblGRCm39 Ensembl
GRCm383130,180,358 - 130,599,884 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl3130,131,501 - 130,599,877 (+)EnsemblGRCm38mm10GRCm38
MGSCv373129,883,796 - 130,299,335 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv363130,170,033 - 130,585,572 (+)NCBIMGSCv36mm8
Celera3136,700,003 - 137,111,818 (+)NCBICelera
Cytogenetic Map3G3NCBI
cM Map359.99NCBI
Col25a1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955496839,561 - 1,250,614 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955496839,474 - 1,255,107 (+)NCBIChiLan1.0ChiLan1.0
COL25A1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v23106,903,996 - 107,403,679 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan14107,199,882 - 107,697,183 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v04101,311,291 - 101,808,618 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.14111,885,022 - 112,378,687 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl4111,886,313 - 112,378,062 (-)Ensemblpanpan1.1panPan2
COL25A1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13229,119,875 - 29,567,994 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3229,124,996 - 29,567,481 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3212,454,708 - 12,899,162 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03229,350,282 - 29,794,748 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3229,350,312 - 29,794,242 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13229,344,713 - 29,789,307 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03229,089,004 - 29,534,144 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03210,322,491 - 10,767,078 (+)NCBIUU_Cfam_GSD_1.0
Col25a1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530111,393,313 - 11,849,115 (+)NCBIHiC_Itri_2
SpeTri2.0NW_004936563105,551 - 557,682 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
COL25A1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl8112,867,664 - 113,334,097 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.18112,866,597 - 113,335,765 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.28121,286,327 - 121,453,787 (+)NCBISscrofa10.2Sscrofa10.2susScr3
COL25A1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1756,730,456 - 57,229,587 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366603735,356,307 - 35,872,306 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Col25a1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624830440,429 - 838,818 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624830440,028 - 842,635 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Col25a1
3211 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:221
Count of miRNA genes:148
Interacting mature miRNAs:165
Transcripts:ENSRNOT00000071463, ENSRNOT00000074816, ENSRNOT00000075728
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354648Bp239Blood pressure QTL 2390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)266118463226797303Rat
1581569Uae32Urinary albumin excretion QTL 320.0001urine protein amount (VT:0005160)urine albumin excretion rate (CMO:0000757)278665619219826953Rat
724534Uae6Urinary albumin excretion QTL 610urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)278665619249053267Rat
8662832Vetf7Vascular elastic tissue fragility QTL 73.5aorta elastin amount (VT:0003905)aorta wall extracellular elastin dry weight to aorta wall dry weight ratio (CMO:0002002)281689826221035911Rat
1354622Kidm16Kidney mass QTL 163kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)281754530222436696Rat
1354649Kidm17Kidney mass QTL 172.9kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)281754530227146641Rat
1331794Bp202Blood pressure QTL 2023.66819arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2141194931223265385Rat
1331805Cm29Cardiac mass QTL 293.50746heart mass (VT:0007028)heart wet weight (CMO:0000069)2141194931223265385Rat
1641925Alcrsp2Alcohol response QTL 2response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2149559561221167075Rat
1641891Alcrsp17Alcohol response QTL 17response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2149559561249053267Rat
8662843Vetf9Vascular elastic tissue fragility QTL 92.05thoracic aorta molecular composition trait (VT:0010568)aorta wall extracellular elastin dry weight to aorta wall extracellular collagen weight ratio (CMO:0002003)2157142078226277316Rat
1358356Srcrt1Stress Responsive Cort QTL13.66blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)2161699179222436696Rat
2306901Bp337Blood pressure QTL 3370.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2164073756227146641Rat
1331734Bp204Blood pressure QTL 2043.61192arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2168358098223265385Rat
2300189Bmd48Bone mineral density QTL 485.80.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)2179335906224335906Rat
61417Cia10Collagen induced arthritis QTL 103.4joint integrity trait (VT:0010548)experimental arthritis severity measurement (CMO:0001459)2179946951224946951Rat
8694435Bw166Body weight QTL 16614.080.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)2182171407227171407Rat
9589044Scfw1Subcutaneous fat weight QTL 15.80.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)2182171407227171407Rat
8694383Bw158Body weight QTL 1587.690.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)2182171407227171407Rat
8694194Abfw1Abdominal fat weight QTL 111.70.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)2182171407227171407Rat
738013Alc15Alcohol consumption QTL 154.10.00022consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)2184165752229165752Rat
1359031Bp275Blood pressure QTL 275arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2185876309219753474Rat
1359031Bp275Blood pressure QTL 275arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2185876309219753474Rat
1581499Esta2Estrogen-induced thymic atrophy QTL 2thymus mass (VT:0004954)thymus wet weight (CMO:0000855)2189599258226936289Rat
61366Iddm3Insulin dependent diabetes mellitus QTL 34.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)2189599258234599258Rat
61398Bp50Blood pressure QTL 504.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2189599258234599258Rat
2301408Kidm36Kidney mass QTL 360.002kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)2190613715226808892Rat
2317752Glom23Glomerulus QTL 233.6urine protein amount (VT:0005160)urine protein level (CMO:0000591)2193452645245889826Rat
1598813Memor9Memory QTL 92.7exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)2199341726234244620Rat
1598835Anxrr18Anxiety related response QTL 182.98body movement coordination trait (VT:0005424)number of rearing movements in an experimental apparatus (CMO:0001752)2200990457245990457Rat
2298479Eau5Experimental allergic uveoretinitis QTL 50.0021uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)2202446871237938339Rat
2299161Iddm33Insulin dependent diabetes mellitus QTL 332.98blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)2206312063220876787Rat
631203Gluco14Glucose level QTL 140.0001blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)2206665645219003804Rat
7207490Bss111Bone structure and strength QTL 1116.4femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)2211744537249053267Rat
7207482Bss107Bone structure and strength QTL 1077femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)2211744537249053267Rat
7207484Bss108Bone structure and strength QTL 1085.3femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)2211744537249053267Rat
1298075Scl17Serum cholesterol level QTL 173.4blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)2211744537249053267Rat
1549836Bss2Bone structure and strength QTL 27.5femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)2211744537249053267Rat
2317885Alcrsp28Alcohol response QTL 282.10.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2212828222249053267Rat
1300126Bp175Blood pressure QTL 1753.46arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2214226044247136170Rat
2313073Bmd75Bone mineral density QTL 754.10.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)2215377404237938339Rat
1331767Hrtrt12Heart rate QTL 123.373heart pumping trait (VT:2000009)heart rate (CMO:0000002)2218414747240841241Rat

Markers in Region
D2Rat156  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22219,003,602 - 219,003,804 (+)MAPPERmRatBN7.2
Rnor_6.02235,570,769 - 235,570,970NCBIRnor6.0
Rnor_5.02254,122,117 - 254,122,318UniSTSRnor5.0
RGSC_v3.42227,923,954 - 227,924,156RGDRGSC3.4
RGSC_v3.42227,923,955 - 227,924,156UniSTSRGSC3.4
RGSC_v3.12227,910,694 - 227,910,896RGD
Celera2211,278,782 - 211,278,983UniSTS
SHRSP x BN Map288.6198UniSTS
SHRSP x BN Map288.6198RGD
FHH x ACI Map2101.7199RGD
D2Ulb14  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22218,904,568 - 218,904,741 (+)MAPPERmRatBN7.2
Rnor_6.02234,704,354 - 234,704,524NCBIRnor6.0
Rnor_5.02254,020,469 - 254,020,639UniSTSRnor5.0
RGSC_v3.42227,824,121 - 227,824,291UniSTSRGSC3.4
Celera2211,180,284 - 211,180,454UniSTS
Cytogenetic Map2 RGD
D2Ulb15  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22218,904,568 - 218,904,859 (+)MAPPERmRatBN7.2
Rnor_6.02234,704,354 - 234,704,642NCBIRnor6.0
Rnor_5.02254,020,469 - 254,020,757UniSTSRnor5.0
RGSC_v3.42227,824,121 - 227,824,409UniSTSRGSC3.4
Celera2211,180,284 - 211,180,572UniSTS
Cytogenetic Map2 RGD
AW530842  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22218,809,153 - 218,809,336 (+)MAPPERmRatBN7.2
Rnor_6.02230,542,409 - 230,542,591NCBIRnor6.0
Rnor_5.02249,895,032 - 249,895,214UniSTSRnor5.0
RGSC_v3.42227,710,125 - 227,710,307UniSTSRGSC3.4
Celera2211,087,343 - 211,087,525UniSTS
RH 3.4 Map21547.6UniSTS
AU047490  
Rat AssemblyChrPosition (strand)SourceJBrowse
Celera2211,109,025 - 211,109,246UniSTS
D17S802  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_5.03155,184,712 - 155,185,467UniSTSRnor5.0
RGSC_v3.4204,369,896 - 4,370,394UniSTSRGSC3.4
RGSC_v3.42227,893,021 - 227,893,896UniSTSRGSC3.4
Celera205,968,749 - 5,969,247UniSTS
Celera2211,247,899 - 211,248,773UniSTS
Cytogenetic Map3q41UniSTS
Cytogenetic Map20p12UniSTS


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 6 4 4 42 5
Low 22 34 25 14 25 3 3 32 19 29 2 3
Below cutoff 3 17 17 12 5 12 5 6 6 6 8 5

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_017591346 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017596908 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017596910 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017596911 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017596917 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017596920 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017596922 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017596923 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017596924 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017596925 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017596927 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017596933 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017596934 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017596935 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017596936 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017596937 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017596938 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017596940 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017596941 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017596942 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017596943 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017596944 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063282749 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JAXUCZ010000002 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000071463   ⟹   ENSRNOP00000064468
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2218,755,691 - 219,153,501 (+)Ensembl
Rnor_6.0 Ensembl2235,596,907 - 235,711,272 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000074816   ⟹   ENSRNOP00000067665
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2218,755,691 - 219,150,167 (+)Ensembl
Rnor_6.0 Ensembl2235,596,123 - 235,715,057 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000075728   ⟹   ENSRNOP00000066571
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2218,756,056 - 219,153,501 (+)Ensembl
Rnor_6.0 Ensembl2235,596,907 - 235,711,272 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000088970
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl2230,476,320 - 230,479,594 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000096153   ⟹   ENSRNOP00000083624
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2218,755,691 - 219,153,501 (+)Ensembl
RefSeq Acc Id: XM_063282749   ⟹   XP_063138819
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82221,429,378 - 221,828,536 (+)NCBI
Protein Sequences
Protein RefSeqs XP_063138819 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000064468.3
  ENSRNOP00000066571.3
  ENSRNOP00000067665.3
  ENSRNOP00000083624.1
Reference Protein Sequences
RefSeq Acc Id: ENSRNOP00000066571   ⟸   ENSRNOT00000075728
RefSeq Acc Id: ENSRNOP00000064468   ⟸   ENSRNOT00000071463
RefSeq Acc Id: ENSRNOP00000067665   ⟸   ENSRNOT00000074816
RefSeq Acc Id: ENSRNOP00000083624   ⟸   ENSRNOT00000096153
RefSeq Acc Id: XP_063138819   ⟸   XM_063282749

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-M0R513-F1-model_v2 AlphaFold M0R513 1-503 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:1590105 AgrOrtholog
BioCyc Gene G2FUF-51228 BioCyc
Ensembl Genes ENSRNOG00000050706 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOG00000053168 Ensembl
Ensembl Transcript ENSRNOT00000071463.4 UniProtKB/TrEMBL
  ENSRNOT00000074816.4 UniProtKB/TrEMBL
  ENSRNOT00000075728.3 UniProtKB/TrEMBL
  ENSRNOT00000096153.1 UniProtKB/TrEMBL
InterPro Collagen UniProtKB/TrEMBL
NCBI Gene 687064 ENTREZGENE
PANTHER COLLAGEN ALPHA-1(XXV) CHAIN UniProtKB/TrEMBL
  SI:CH211-266K2.1 UniProtKB/TrEMBL
Pfam Collagen UniProtKB/TrEMBL
PhenoGen Col25a1 PhenoGen
RatGTEx ENSRNOG00000050706 RatGTEx
  ENSRNOG00000053168 RatGTEx
UniProt A0A8I6GAZ6_RAT UniProtKB/TrEMBL
  M0R513_RAT UniProtKB/TrEMBL
  M0RAM0_RAT UniProtKB/TrEMBL
  M0RDG5_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Col25a1  collagen type XXV alpha 1 chain  LOC102553088  collagen alpha-1(XXV) chain-like  Data merged from RGD:7687817 737654 PROVISIONAL
2016-07-27 Col25a1  collagen type XXV alpha 1 chain  Col25a1  collagen, type XXV, alpha 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-12-18 LOC102553088  collagen alpha-1(XXV) chain-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2013-08-16 Col25a1  collagen, type XXV, alpha 1  LOC687064  similar to collagen, type XXV, alpha 1 isoform 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-20 LOC687064  similar to collagen, type XXV, alpha 1 isoform 1      Symbol and Name status set to provisional 70820 PROVISIONAL