LOC476167 (cytochrome b5 pseudogene) - Rat Genome Database

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Gene: LOC476167 (cytochrome b5 pseudogene) Canis lupus familiaris
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Symbol: LOC476167 (Ensembl: CYB5A)
Name: cytochrome b5 pseudogene (Ensembl:cytochrome b5 type A (microsomal))
RGD ID: 12140690
Description: ENCODES a pseudogene that exhibits enzyme binding (ortholog); INVOLVED IN response to cadmium ion (ortholog); ASSOCIATED WITH adult respiratory distress syndrome (ortholog); chromosome 18q deletion syndrome (ortholog); Congenital Methemoglobinemia (ortholog); FOUND IN cytosol (ortholog); endoplasmic reticulum membrane (ortholog); intracellular membrane-bounded organelle (ortholog)
Type: pseudo (Ensembl: protein-coding)
RefSeq Status: INFERRED
Previously known as: CYB5A; cytochrome b5; cytochrome b5 type A (microsomal); cytochrome b5A microsomal
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Related Functional Gene: CYB5A  
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.115,070,817 - 5,106,668 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl15,070,865 - 5,106,932 (+)EnsemblCanFam3.1canFam3CanFam3.1
ROS_Cfam_1.0 Ensembl14,881,337 - 4,922,028 (+)EnsemblROS_Cfam_1.0 Ensembl
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

Genomics

Comparative Map Data
LOC476167
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.115,070,817 - 5,106,668 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl15,070,865 - 5,106,932 (+)EnsemblCanFam3.1canFam3CanFam3.1
ROS_Cfam_1.0 Ensembl14,881,337 - 4,922,028 (+)EnsemblROS_Cfam_1.0 Ensembl
CYB5A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381874,250,846 - 74,291,963 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1874,250,846 - 74,291,973 (-)EnsemblGRCh38hg38GRCh38
GRCh371871,918,081 - 71,959,198 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361870,071,507 - 70,110,201 (-)NCBINCBI36Build 36hg18NCBI36
Build 341870,071,507 - 70,110,201NCBI
Celera1868,787,880 - 68,826,566 (-)NCBICelera
Cytogenetic Map18q22.3NCBI
HuRef1868,652,932 - 68,691,654 (-)NCBIHuRef
CHM1_11871,915,750 - 71,954,471 (-)NCBICHM1_1
T2T-CHM13v2.01874,478,400 - 74,519,513 (-)NCBIT2T-CHM13v2.0
Cyb5a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391884,869,463 - 84,897,996 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1884,856,829 - 84,897,996 (+)EnsemblGRCm39 Ensembl
GRCm381884,851,338 - 84,879,871 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1884,838,704 - 84,879,871 (+)EnsemblGRCm38mm10GRCm38
MGSCv371885,020,806 - 85,049,255 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361884,985,607 - 85,014,056 (+)NCBIMGSCv36mm8
Celera1885,916,355 - 85,944,796 (+)NCBICelera
Cytogenetic Map18E4NCBI
cM Map1857.53NCBI
Cyb5a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81880,487,923 - 80,520,544 (+)NCBIGRCr8
mRatBN7.21878,213,067 - 78,245,677 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1878,202,342 - 78,258,535 (+)EnsemblmRatBN7.2 Ensembl
mRatBN7.2 Ensembl1814,179,160 - 14,180,288 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1880,316,171 - 80,348,668 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01880,988,228 - 81,020,725 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01878,823,908 - 78,856,406 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01881,694,818 - 81,726,821 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1881,694,808 - 81,726,821 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01880,739,215 - 80,770,883 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41881,415,972 - 81,452,606 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11881,489,421 - 81,526,056 (+)NCBI
Celera1876,829,153 - 76,861,638 (+)NCBICelera
Cytogenetic Map18q12.3NCBI
LOC102012144
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540257,701,931 - 57,739,163 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540257,701,931 - 57,739,163 (-)NCBIChiLan1.0ChiLan1.0
LOC100968898
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21791,788,331 - 91,827,345 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11877,480,954 - 77,519,968 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01867,638,406 - 67,677,111 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11870,919,329 - 70,957,873 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1870,919,617 - 70,957,732 (-)Ensemblpanpan1.1panPan2
LOC101960314
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494418,855,437 - 18,885,877 (+)NCBIHiC_Itri_2
SpeTri2.0NW_0049366164,176,576 - 4,210,276 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CYB5A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1149,737,571 - 149,773,219 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11149,737,584 - 149,773,222 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21165,902,066 - 165,937,612 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CYB5A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1185,599,198 - 5,636,620 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl185,599,206 - 5,640,012 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366606020,247,043 - 20,284,435 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
LOC101711375
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248066,399,460 - 6,436,735 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248066,399,708 - 6,434,667 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in LOC476167
277 total Variants

Expression

RNA-SEQ Expression

adipose tissue
alimentary part of gastrointestinal system
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
reproductive system
respiratory system
6 5 5 23 22 16 6 6 6 6 33 22 12 14 10

Sequence


Ensembl Acc Id: ENSCAFT00000000044   ⟹   ENSCAFP00000000041
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl15,070,903 - 5,106,932 (+)Ensembl
Ensembl Acc Id: ENSCAFT00000076171   ⟹   ENSCAFP00000049273
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl15,070,903 - 5,106,932 (+)Ensembl
Ensembl Acc Id: ENSCAFT00000080931   ⟹   ENSCAFP00000053626
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl15,070,865 - 5,103,758 (+)Ensembl
Ensembl Acc Id: ENSCAFT00000085753   ⟹   ENSCAFP00000047408
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl15,070,865 - 5,106,645 (+)Ensembl
Ensembl Acc Id: ENSCAFT00845001564   ⟹   ENSCAFP00845001235
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl14,881,337 - 4,917,101 (+)Ensembl
Ensembl Acc Id: ENSCAFT00845001575   ⟹   ENSCAFP00845001245
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl14,881,337 - 4,914,214 (+)Ensembl
Ensembl Acc Id: ENSCAFT00845001605   ⟹   ENSCAFP00845001273
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl14,881,338 - 4,922,028 (+)Ensembl
Ensembl Acc Id: ENSCAFT00845001613   ⟹   ENSCAFP00845001277
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl14,881,338 - 4,922,028 (+)Ensembl
RefSeq Acc Id: NM_001193298   ⟹   NP_001180227
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.115,070,925 - 5,106,668 (+)NCBI
Sequence:
RefSeq Acc Id: XM_022418192   ⟹   XP_022273900
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.115,070,817 - 5,106,666 (+)NCBI
Sequence:
Protein Sequences
Ensembl Protein ENSCAFP00000070487.1
  ENSCAFP00845001235.1
  ENSCAFP00845001277.1
RefSeq Acc Id: NP_001180227   ⟸   NM_001193298
- Sequence:
RefSeq Acc Id: XP_022273900   ⟸   XM_022418192
- Peptide Label: isoform X1
- Sequence:
Ensembl Acc Id: ENSCAFP00000000041   ⟸   ENSCAFT00000000044
Ensembl Acc Id: ENSCAFP00000049273   ⟸   ENSCAFT00000076171
Ensembl Acc Id: ENSCAFP00000053626   ⟸   ENSCAFT00000080931
Ensembl Acc Id: ENSCAFP00000047408   ⟸   ENSCAFT00000085753
Ensembl Acc Id: ENSCAFP00845001273   ⟸   ENSCAFT00845001605
Ensembl Acc Id: ENSCAFP00845001245   ⟸   ENSCAFT00845001575
Ensembl Acc Id: ENSCAFP00845001277   ⟸   ENSCAFT00845001613
Ensembl Acc Id: ENSCAFP00845001235   ⟸   ENSCAFT00845001564
Protein Domains
Cytochrome b5 heme-binding

Promoters
RGD ID:13681939
Promoter ID:EPDNEW_C9
Type:initiation region
Name:CYB5A_1
Description:cytochrome b5
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.115,070,898 - 5,070,958EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000000026 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00845000926 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000105633.1 UniProtKB/TrEMBL
  ENSCAFT00845001564.1 UniProtKB/TrEMBL
  ENSCAFT00845001613.1 UniProtKB/TrEMBL
Gene3D-CATH 3.10.120.10 UniProtKB/TrEMBL
InterPro Cyt_B5-like_heme/steroid-bd UniProtKB/TrEMBL
  Cyt_B5-like_heme/steroid_sf UniProtKB/TrEMBL
  Cyt_B5_heme-BS UniProtKB/TrEMBL
  Cytochrome_b5 UniProtKB/TrEMBL
NCBI Gene CYB5A ENTREZGENE
PANTHER CYTOCHROME B5 UniProtKB/TrEMBL
  CYTOCHROME B5 UniProtKB/TrEMBL
Pfam Cyt-b5 UniProtKB/TrEMBL
PRINTS CYTOCHROMEB5 UniProtKB/TrEMBL
PROSITE CYTOCHROME_B5_1 UniProtKB/TrEMBL
  CYTOCHROME_B5_2 UniProtKB/TrEMBL
SMART Cyt-b5 UniProtKB/TrEMBL
Superfamily-SCOP SSF55856 UniProtKB/TrEMBL
UniProt A0A8I3MJ24_CANLF UniProtKB/TrEMBL
  A0A8I3RR60_CANLF UniProtKB/TrEMBL
  A0A8P0TNA5_CANLF UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2024-02-20 LOC476167  cytochrome b5 pseudogene  CYB5A  cytochrome b5 type A (microsomal)  Symbol and/or name change 5135510 APPROVED