Fam25a (family with sequence similarity 25, member A) - Rat Genome Database

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Gene: Fam25a (family with sequence similarity 25, member A) Rattus norvegicus
Analyze
Symbol: Fam25a
Name: family with sequence similarity 25, member A
RGD ID: 1584388
Description: Orthologous to several human genes including FAM25A (family with sequence similarity 25 member A); INTERACTS WITH 1-naphthyl isothiocyanate; 17beta-estradiol; 3,7-dihydropurine-6-thione.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: hypothetical protein LOC684972; LOC684972; uncharacterized protein LOC684972
RGD Orthologs
Human
Mouse
Chinchilla
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8169,686,922 - 9,690,728 (-)NCBIGRCr8
mRatBN7.2169,680,668 - 9,684,474 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl169,680,668 - 9,684,474 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx169,700,823 - 9,704,603 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01610,845,539 - 10,849,319 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0169,695,903 - 9,699,686 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01610,702,264 - 10,706,073 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1610,702,263 - 10,706,073 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0169,020,712 - 9,033,706 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41610,005,961 - 10,009,941 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera165,532,344 - 5,536,153 (+)NCBICelera
Cytogenetic Map16p15NCBI
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
Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Fam25a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8169,686,922 - 9,690,728 (-)NCBIGRCr8
mRatBN7.2169,680,668 - 9,684,474 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl169,680,668 - 9,684,474 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx169,700,823 - 9,704,603 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01610,845,539 - 10,849,319 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0169,695,903 - 9,699,686 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01610,702,264 - 10,706,073 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1610,702,263 - 10,706,073 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0169,020,712 - 9,033,706 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41610,005,961 - 10,009,941 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera165,532,344 - 5,536,153 (+)NCBICelera
Cytogenetic Map16p15NCBI
FAM25A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381087,020,294 - 87,024,730 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1087,020,294 - 87,024,730 (+)EnsemblGRCh38hg38GRCh38
GRCh371088,780,051 - 88,784,487 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361088,770,026 - 88,774,469 (+)NCBINCBI36Build 36hg18NCBI36
Celera1082,783,049 - 82,787,492 (+)NCBICelera
Cytogenetic Map10q23.2NCBI
HuRef1082,633,731 - 82,638,174 (+)NCBIHuRef
CHM1_11089,061,763 - 89,066,207 (+)NCBICHM1_1
T2T-CHM13v2.01087,903,926 - 87,908,365 (+)NCBIT2T-CHM13v2.0
Fam25a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391434,073,842 - 34,080,296 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1434,073,838 - 34,077,390 (-)EnsemblGRCm39 Ensembl
GRCm381434,351,882 - 34,358,339 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1434,351,881 - 34,355,433 (-)EnsemblGRCm38mm10GRCm38
MGSCv371435,165,068 - 35,168,579 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361433,180,974 - 33,184,485 (-)NCBIMGSCv36mm8
Celera1430,617,925 - 30,621,434 (-)NCBICelera
Cytogenetic Map14BNCBI
cM Map1420.81NCBI
Fam25a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049555105,975,395 - 5,977,534 (+)NCBIChiLan1.0ChiLan1.0
FAM25A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1434,613,858 - 34,621,561 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha434,605,221 - 34,612,812 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0434,974,173 - 34,981,855 (+)NCBIROS_Cfam_1.0
UMICH_Zoey_3.1434,819,807 - 34,826,960 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0434,988,777 - 34,995,965 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0435,494,610 - 35,502,298 (+)NCBIUU_Cfam_GSD_1.0
Fam25a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440721343,810,337 - 43,813,283 (-)NCBIHiC_Itri_2
SpeTri2.0NW_0049366015,442,940 - 5,445,804 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
FAM25A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.11487,940,256 - 87,943,535 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21495,332,399 - 95,335,740 (+)NCBISscrofa10.2Sscrofa10.2susScr3
Fam25a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624841169,626 - 178,537 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624841169,582 - 178,569 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Fam25a
38 total Variants

QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631561Hcuc2Hepatic copper content QTL 22.8liver copper amount (VT:0003065)liver total copper weight (CMO:0001507)16139533949Rat
1582235Insul8Insulin level QTL 83.30.0063blood insulin amount (VT:0001560)calculated serum insulin level (CMO:0000359)16126727669Rat
2307172Activ4Activity QTL 43.710.00023locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)16133418960Rat
1354584Despr6Despair related QTL 63.10.0067locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)16139533930Rat
2302380Slep6Serum leptin concentration QTL 63.36blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)16132139025Rat
737819Hcas4Hepatocarcinoma susceptibility QTL 44.43liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)16422760946975965Rat
9590151Scort8Serum corticosterone level QTL 88.450.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)16130836262Rat
1354625Despr7Despair related QTL 73.160.016locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)16144977551Rat
61338Bp23Blood pressure QTL 234.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16422760949227609Rat
61405Niddm6Non-insulin dependent diabetes mellitus QTL 63.660.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)16422760948972724Rat
631830Alc7Alcohol consumption QTL 72.9consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16126727669Rat
7411664Foco30Food consumption QTL 30110.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)16144588133Rat
1600378Arunc4Aerobic running capacity QTL 40.03exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)1638024580345693Rat
70183BpQTLcluster13Blood pressure QTL cluster 133.654arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)16422760943025077Rat
1600369Hcas8Hepatocarcinoma susceptibility QTL 8liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)16122477621Rat
737826Alc11Alcohol consumption QTL 113.2consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16422760960252231Rat
737825Alc13Alcohol consumption QTL 134.5consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16422760916039848Rat
2303566Bw90Body weight QTL 902body mass (VT:0001259)body weight (CMO:0000012)16139533930Rat
2312663Slep9Serum leptin concentration QTL 90.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)1683223659492508Rat
2306902Bp339Blood pressure QTL 3390.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16338015043025077Rat
1300133Rf24Renal function QTL 243.64blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)16338015021361552Rat
2312660Bw95Body weight QTL 950.05inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)1683223659492508Rat
2312666Insul16Insulin level QTL 160.01blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1683223659492508Rat
634355Rends4Renal damage susceptibility QTL 40.05kidney blood vessel morphology trait (VT:0000530)organ lesion measurement (CMO:0000677)16126727669Rat
61372Bp40Blood pressure QTL 402.2blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)16422773017696785Rat
2293343Glom16Glomerulus QTL 167.4kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)1683223646053497Rat
2301406Kidm39Kidney mass QTL 390.002kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)16285170915884239Rat
6903319Bw114Body weight QTL 1142.70.0037body mass (VT:0001259)body weight (CMO:0000012)16143534949Rat
2312669Stl23Serum triglyceride level QTL 230.01blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)1683223659492508Rat

Markers in Region
BI285092  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2169,680,724 - 9,680,852 (+)MAPPERmRatBN7.2
Rnor_6.01610,702,321 - 10,702,448NCBIRnor6.0
Rnor_5.0169,020,768 - 9,020,842NCBIRnor5.0
RGSC_v3.41610,006,018 - 10,006,145UniSTSRGSC3.4
Celera165,535,969 - 5,536,096UniSTS
RH 3.4 Map1695.7UniSTS
Cytogenetic Map16p16UniSTS


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 7
Low 1 18 10 18 10 1 1 4 26 20 4 1
Below cutoff 2 26 30 24 1 24 1 1 15 3 11 1

Sequence


RefSeq Acc Id: ENSRNOT00000089114   ⟹   ENSRNOP00000071578
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl169,680,668 - 9,684,474 (-)Ensembl
Rnor_6.0 Ensembl1610,702,263 - 10,706,073 (-)Ensembl
RefSeq Acc Id: NM_001134849   ⟹   NP_001128321
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8169,686,922 - 9,690,728 (-)NCBI
mRatBN7.2169,680,668 - 9,684,474 (-)NCBI
Rnor_6.01610,702,264 - 10,706,073 (-)NCBI
Rnor_5.0169,020,712 - 9,033,706 (-)NCBI
RGSC_v3.41610,005,961 - 10,009,941 (-)RGD
Celera165,532,344 - 5,536,153 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001128321 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL88880 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000071578.1
RefSeq Acc Id: NP_001128321   ⟸   NM_001134849
- UniProtKB: A0A0G2K0T8 (UniProtKB/TrEMBL),   A6KFS3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000071578   ⟸   ENSRNOT00000089114

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2K0T8-F1-model_v2 AlphaFold A0A0G2K0T8 1-89 view protein structure

Transcriptome

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

Promoters
RGD ID:13699957
Promoter ID:EPDNEW_R10481
Type:multiple initiation site
Name:Fam25a_1
Description:family with sequence similarity 25, member A
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01610,706,036 - 10,706,096EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1584388 AgrOrtholog
BioCyc Gene G2FUF-12063 BioCyc
Ensembl Genes ENSRNOG00000055025 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000089114.2 UniProtKB/TrEMBL
InterPro FAM25 UniProtKB/TrEMBL
KEGG Report rno:684972 UniProtKB/TrEMBL
NCBI Gene 684972 ENTREZGENE
PANTHER PROTEIN FAM25A-RELATED UniProtKB/TrEMBL
  PTHR34994 UniProtKB/TrEMBL
Pfam FAM25 UniProtKB/TrEMBL
PhenoGen Fam25a PhenoGen
PRINTS PROTEINF25 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000055025 RatGTEx
UniProt A0A0G2K0T8 ENTREZGENE, UniProtKB/TrEMBL
  A6KFS3 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-05 Fam25a  family with sequence similarity 25, member A  LOC684972  hypothetical protein LOC684972  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-19 LOC684972  hypothetical protein LOC684972      Symbol and Name status set to provisional 70820 PROVISIONAL