Surf1 (SURF1, cytochrome c oxidase assembly factor) - Rat Genome Database
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Gene: Surf1 (SURF1, cytochrome c oxidase assembly factor) Rattus norvegicus
Analyze
Symbol: Surf1
Name: SURF1, cytochrome c oxidase assembly factor
RGD ID: 620527
Description: Predicted to have cytochrome-c oxidase activity. Predicted to be involved in mitochondrial cytochrome c oxidase assembly and oxidative phosphorylation. Predicted to localize to integral component of membrane and mitochondrial inner membrane. Human ortholog(s) of this gene implicated in Charcot-Marie-Tooth disease type 4K; Leigh disease; and cytochrome-c oxidase deficiency disease. Orthologous to human SURF1 (SURF1 cytochrome c oxidase assembly factor); INTERACTS WITH ammonium chloride; bisphenol A; N,N-diethyl-m-toluamide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: Ab1-205; LOC100912008; surfeit 1; surfeit locus protein 1; uncharacterized LOC100912008
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2310,241,793 - 10,244,686 (-)NCBI
Rnor_6.0 Ensembl34,869,795 - 4,872,632 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.035,461,717 - 5,464,560 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0310,823,627 - 10,826,484 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.435,810,638 - 5,813,475 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.135,810,937 - 5,813,775 (-)NCBI
Celera35,039,828 - 5,042,665 (-)NCBICelera
Cytogenetic Map3p13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

Additional References at PubMed
PMID:12566387   PMID:20888800   PMID:23838831   PMID:24027061  


Genomics

Comparative Map Data
Surf1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2310,241,793 - 10,244,686 (-)NCBI
Rnor_6.0 Ensembl34,869,795 - 4,872,632 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.035,461,717 - 5,464,560 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0310,823,627 - 10,826,484 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.435,810,638 - 5,813,475 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.135,810,937 - 5,813,775 (-)NCBI
Celera35,039,828 - 5,042,665 (-)NCBICelera
Cytogenetic Map3p13NCBI
SURF1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl9133,351,758 - 133,356,676 (-)EnsemblGRCh38hg38GRCh38
GRCh389133,351,758 - 133,356,487 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh379136,218,613 - 136,223,363 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 369135,208,487 - 135,213,182 (-)NCBINCBI36hg18NCBI36
Build 349133,248,219 - 133,252,915NCBI
Celera9106,769,152 - 106,773,840 (-)NCBI
Cytogenetic Map9q34.2NCBI
HuRef9105,718,581 - 105,723,261 (-)NCBIHuRef
CHM1_19136,368,824 - 136,373,504 (-)NCBICHM1_1
Surf1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39226,803,390 - 26,806,667 (-)NCBIGRCm39mm39
GRCm39 Ensembl226,803,393 - 26,806,542 (-)Ensembl
GRCm38226,913,378 - 26,916,610 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl226,913,381 - 26,916,530 (-)EnsemblGRCm38mm10GRCm38
MGSCv37226,768,898 - 26,772,050 (-)NCBIGRCm37mm9NCBIm37
MGSCv36226,735,445 - 26,738,340 (-)NCBImm8
Celera226,623,123 - 26,626,275 (-)NCBICelera
Cytogenetic Map2A3NCBI
cM Map219.1NCBI
Surf1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555132,707,951 - 2,711,566 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555132,707,877 - 2,711,606 (-)NCBIChiLan1.0ChiLan1.0
LOC100983451
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.19133,085,739 - 133,088,911 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl9133,085,739 - 133,088,904 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v09104,475,018 - 104,479,714 (-)NCBIMhudiblu_PPA_v0panPan3
SURF1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1949,786,562 - 49,790,004 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl949,786,085 - 49,790,148 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha949,066,928 - 49,071,492 (-)NCBI
ROS_Cfam_1.0950,659,471 - 50,664,036 (-)NCBI
UMICH_Zoey_3.1949,421,907 - 49,426,471 (-)NCBI
UNSW_CanFamBas_1.0949,763,390 - 49,767,971 (-)NCBI
UU_Cfam_GSD_1.0949,841,389 - 49,845,964 (-)NCBI
LOC101971854
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947199,842,971 - 199,847,440 (-)NCBI
SpeTri2.0NW_0049366693,527,741 - 3,532,087 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SURF1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1272,965,637 - 272,970,510 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11272,965,637 - 272,970,516 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
LOC103239687
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1124,780,415 - 4,785,538 (+)NCBI
ChlSab1.1 Ensembl124,780,568 - 4,785,385 (+)Ensembl
LOC101710326
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247601,815,215 - 1,819,014 (-)NCBI

Position Markers
RH141176  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.034,869,885 - 4,870,317NCBIRnor6.0
Rnor_6.035,461,812 - 5,462,244NCBIRnor6.0
Rnor_5.0310,823,722 - 10,824,154UniSTSRnor5.0
Rnor_5.0310,225,082 - 10,225,514UniSTSRnor5.0
RGSC_v3.435,810,728 - 5,811,160UniSTSRGSC3.4
Celera35,039,918 - 5,040,350UniSTS
RH 3.4 Map321.9UniSTS
Cytogenetic Map3p12UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631679Cm10Cardiac mass QTL 107.340.0001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)3125786001Rat
70202Alc19Alcohol consumption QTL 192.5drinking behavior trait (VT:0001422)ethanol intake volume to total fluid intake volume ratio (CMO:0001591)3128136884Rat
631545Bp85Blood pressure QTL 853.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3128500807Rat
61468Bp15Blood pressure QTL 154.4blood pressure trait (VT:0000183)diastolic blood pressure (CMO:0000005)3128500807Rat
61468Bp15Blood pressure QTL 154.4blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)3128500807Rat
61468Bp15Blood pressure QTL 154.4blood pressure trait (VT:0000183)pulse pressure (CMO:0000292)3128500807Rat
631831Alc8Alcohol consumption QTL 82.7consumption behavior trait (VT:0002069)calculated ethanol drink intake rate (CMO:0001615)3132972944Rat
4889966Bss95Bone structure and strength QTL 954.4tibia area (VT:1000281)tibia-fibula cross-sectional area (CMO:0001718)3137891710Rat
2312664Scl62Serum cholesterol level QTL 620.05blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)3139773425Rat
2290452Scl56Serum cholesterol level QTL 562.26blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)3195176874Rat
1358185Ept6Estrogen-induced pituitary tumorigenesis QTL 66.7pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)35711366000866Rat
2292615Ept17Estrogen-induced pituitary tumorigenesis QTL 176.7pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)35711366000866Rat
1298526Arunc3Aerobic running capacity QTL 32.2exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)3263142133477544Rat
10401810Kidm53Kidney mass QTL 53kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)3263142148562146Rat
70203Gcr2Gastric cancer resistance QTL 22.6stomach morphology trait (VT:0000470)stomach tumor susceptibility score (CMO:0002043)3328592928136884Rat
1358357Srcrtb1Stress Responsive Cort Basal QTL 16.360.002blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)3328592928136884Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:188
Count of miRNA genes:130
Interacting mature miRNAs:142
Transcripts:ENSRNOT00000061242, ENSRNOT00000071754
Prediction methods:Microtar, Miranda, Rnahybrid
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


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
Low 3 43 57 41 19 41 8 11 74 35 40 11 8
Below cutoff 1

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_172068 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006233726 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006233727 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006233864 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006233865 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017592020 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017592021 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017592022 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017592099 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017592100 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017592101 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039105787 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039105788 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039105789 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC126134 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF182952 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH474001 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000115 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000061242   ⟹   ENSRNOP00000057954
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl34,869,795 - 4,872,632 (-)Ensembl
RefSeq Acc Id: NM_172068   ⟹   NP_742065
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2310,241,798 - 10,244,635 (-)NCBI
Rnor_6.035,461,722 - 5,464,559 (-)NCBI
Rnor_5.0310,823,627 - 10,826,484 (-)NCBI
RGSC_v3.435,810,638 - 5,813,475 (-)RGD
Celera35,039,828 - 5,042,665 (-)RGD
Sequence:
RefSeq Acc Id: XM_006233726   ⟹   XP_006233788
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2310,241,793 - 10,244,635 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006233727   ⟹   XP_006233789
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2310,241,793 - 10,244,668 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006233864   ⟹   XP_006233926
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.035,461,717 - 5,464,529 (-)NCBI
Rnor_5.0310,823,627 - 10,826,484 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006233865   ⟹   XP_006233927
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.035,461,717 - 5,464,550 (-)NCBI
Rnor_5.0310,823,627 - 10,826,484 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017592020   ⟹   XP_017447509
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.035,461,717 - 5,464,555 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017592021   ⟹   XP_017447510
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.035,461,717 - 5,464,560 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017592022   ⟹   XP_017447511
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.035,461,717 - 5,463,509 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017592099   ⟹   XP_017447588
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2310,241,793 - 10,244,686 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017592100   ⟹   XP_017447589
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2310,241,793 - 10,244,680 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017592101   ⟹   XP_017447590
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2310,241,793 - 10,243,849 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039105787   ⟹   XP_038961715
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2310,241,793 - 10,244,631 (-)NCBI
RefSeq Acc Id: XM_039105788   ⟹   XP_038961716
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2310,241,793 - 10,244,631 (-)NCBI
RefSeq Acc Id: XM_039105789   ⟹   XP_038961717
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2310,243,020 - 10,244,680 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_742065   ⟸   NM_172068
- UniProtKB: Q9QXU2 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006233927   ⟸   XM_006233865
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006233926   ⟸   XM_006233864
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017447510   ⟸   XM_017592021
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_017447509   ⟸   XM_017592020
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017447511   ⟸   XM_017592022
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: ENSRNOP00000057954   ⟸   ENSRNOT00000061242
RefSeq Acc Id: XP_017447588   ⟸   XM_017592099
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017447589   ⟸   XM_017592100
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_006233789   ⟸   XM_006233727
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006233788   ⟸   XM_006233726
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_038961716   ⟸   XM_039105788
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038961715   ⟸   XM_039105787
- Peptide Label: isoform X3
RefSeq Acc Id: XP_017447590   ⟸   XM_017592101
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_038961717   ⟸   XM_039105789
- Peptide Label: isoform X7

Transcriptome

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


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620527 AgrOrtholog
  RGD:6489329 AgrOrtholog
Ensembl Genes ENSRNOG00000005247 Ensembl, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000057954 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000061242 UniProtKB/Swiss-Prot
InterPro Surf1/Shy1 UniProtKB/Swiss-Prot
KEGG Report rno:100912008 UniProtKB/Swiss-Prot
  rno:64463 UniProtKB/Swiss-Prot
NCBI Gene 64463 ENTREZGENE
Pfam SURF1 UniProtKB/Swiss-Prot
PhenoGen Surf1 PhenoGen
PROSITE SURF1 UniProtKB/Swiss-Prot
UniProt Q9QXU2 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Surf1  SURF1, cytochrome c oxidase assembly factor  LOC100912008  uncharacterized LOC100912008  Data Merged 737654 PROVISIONAL
2018-04-19 Surf1  SURF1, cytochrome c oxidase assembly factor  Surf1  surfeit 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-07-05 LOC100912008  uncharacterized LOC100912008      Symbol and Name status set to provisional 70820 PROVISIONAL
2004-12-14 Surf1  surfeit 1    Surfeit 1  Name updated 1299863 APPROVED
2002-08-07 Surf1  Surfeit 1      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_disease human homolog is mutated in patients with Leigh syndrome associated with cytochrome c oxidase deficiency 634132