FAM78A (family with sequence similarity 78 member A) - Rat Genome Database

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Gene: FAM78A (family with sequence similarity 78 member A) Sus scrofa
Analyze
Symbol: FAM78A
Name: family with sequence similarity 78 member A
RGD ID: 14072900
Description: ASSOCIATED WITH autosomal recessive limb-girdle muscular dystrophy type 2K (ortholog); genetic disease (ortholog); primary coenzyme Q10 deficiency 7 (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: protein FAM78A
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1271,242,333 - 271,257,836 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11271,242,312 - 271,257,839 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21305,271,852 - 305,284,934 (-)NCBISscrofa10.2Sscrofa10.2susScr3
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

Molecular Function

References

Genomics

Comparative Map Data
FAM78A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1271,242,333 - 271,257,836 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11271,242,312 - 271,257,839 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21305,271,852 - 305,284,934 (-)NCBISscrofa10.2Sscrofa10.2susScr3
FAM78A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh389131,258,078 - 131,281,045 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl9131,258,076 - 131,277,365 (-)EnsemblGRCh38hg38GRCh38
GRCh379134,133,465 - 134,153,422 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 369133,123,286 - 133,141,727 (-)NCBINCBI36Build 36hg18NCBI36
Build 349131,163,019 - 131,181,460NCBI
Celera9104,672,525 - 104,690,968 (-)NCBICelera
Cytogenetic Map9q34.13NCBI
HuRef9103,624,314 - 103,642,697 (-)NCBIHuRef
CHM1_19134,283,073 - 134,301,504 (-)NCBICHM1_1
T2T-CHM13v2.09143,466,357 - 143,489,327 (-)NCBIT2T-CHM13v2.0
Fam78a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39231,932,720 - 31,977,484 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl231,940,067 - 31,974,869 (-)EnsemblGRCm39 Ensembl
GRCm39 Ensembl231,940,098 - 31,954,923 (-)EnsemblGRCm39 Ensembl
GRCm38232,045,969 - 32,087,472 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl232,050,055 - 32,084,857 (-)EnsemblGRCm38mm10GRCm38
MGSCv37231,922,405 - 31,939,225 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36231,888,894 - 31,905,714 (-)NCBIMGSCv36mm8
Celera231,770,221 - 31,787,261 (-)NCBICelera
Cytogenetic Map2BNCBI
cM Map222.0NCBI
Fam78a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8335,753,712 - 35,771,600 (-)NCBIGRCr8
mRatBN7.2315,355,958 - 15,376,330 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl315,355,955 - 15,373,812 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx318,425,573 - 18,442,182 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0327,010,559 - 27,027,168 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0325,261,310 - 25,277,926 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0311,086,016 - 11,105,151 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl311,087,299 - 11,102,515 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0316,438,610 - 16,454,692 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4311,183,349 - 11,197,249 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera310,103,056 - 10,122,065 (-)NCBICelera
Cytogenetic Map3p12NCBI
Fam78a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555131,060,020 - 1,073,817 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555131,060,145 - 1,073,817 (-)NCBIChiLan1.0ChiLan1.0
FAM78A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2118,079,269 - 8,099,238 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan198,081,612 - 8,104,304 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v09102,380,073 - 102,399,992 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.19131,024,410 - 131,042,975 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl9131,024,410 - 131,042,975 (-)Ensemblpanpan1.1panPan2
FAM78A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1952,805,512 - 52,818,197 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl952,805,927 - 52,818,190 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha952,070,680 - 52,083,918 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0953,706,556 - 53,719,802 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl953,707,023 - 53,719,288 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1952,484,097 - 52,499,461 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0952,804,604 - 52,817,833 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0952,897,599 - 52,910,840 (+)NCBIUU_Cfam_GSD_1.0
Fam78a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947198,317,563 - 198,327,887 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493648718,083,859 - 18,096,699 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493648718,086,085 - 18,096,656 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
FAM78A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1126,862,627 - 6,881,942 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl126,863,189 - 6,881,991 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660798,627,260 - 8,645,621 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Fam78a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247604,623,937 - 4,639,240 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247604,621,149 - 4,639,175 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in FAM78A
531 total Variants

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 hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium 2 4 2
Low 9 2 1 1 21 1 3
Below cutoff 1 2 2 2 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000023759   ⟹   ENSSSCP00000020943
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1271,242,333 - 271,257,836 (-)Ensembl
RefSeq Acc Id: XM_013993942   ⟹   XP_013849396
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11271,242,312 - 271,257,839 (-)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: XP_013849396   ⟸   XM_013993942
- UniProtKB: I3LA76 (UniProtKB/TrEMBL),   A0A4X1T8W0 (UniProtKB/TrEMBL),   A0A8D1HAX3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000020943   ⟸   ENSSSCT00000023759


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000028172 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00005001461 UniProtKB/TrEMBL
  ENSSSCG00015063849 UniProtKB/TrEMBL
  ENSSSCG00025013887 UniProtKB/TrEMBL
  ENSSSCG00040037108 UniProtKB/TrEMBL
  ENSSSCG00045013627 UniProtKB/TrEMBL
  ENSSSCG00050015511 UniProtKB/TrEMBL
  ENSSSCG00055007887 UniProtKB/TrEMBL
  ENSSSCG00060049589 UniProtKB/TrEMBL
  ENSSSCG00065077320 UniProtKB/TrEMBL
  ENSSSCG00070007794 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000023759 ENTREZGENE
  ENSSSCT00000023759.4 UniProtKB/TrEMBL
  ENSSSCT00005002090.1 UniProtKB/TrEMBL
  ENSSSCT00005002100.1 UniProtKB/TrEMBL
  ENSSSCT00015085418.1 UniProtKB/TrEMBL
  ENSSSCT00025018458.1 UniProtKB/TrEMBL
  ENSSSCT00040049668.1 UniProtKB/TrEMBL
  ENSSSCT00045023253.1 UniProtKB/TrEMBL
  ENSSSCT00050020994.1 UniProtKB/TrEMBL
  ENSSSCT00055015391.1 UniProtKB/TrEMBL
  ENSSSCT00060067330.1 UniProtKB/TrEMBL
  ENSSSCT00065106912.1 UniProtKB/TrEMBL
  ENSSSCT00070015070.1 UniProtKB/TrEMBL
  ENSSSCT00070015080.1 UniProtKB/TrEMBL
InterPro FAM78 UniProtKB/TrEMBL
KEGG Report ssc:100624292 UniProtKB/TrEMBL
NCBI Gene FAM78A ENTREZGENE
PANTHER PTHR31655 UniProtKB/TrEMBL
  PTHR31655:SF3 UniProtKB/TrEMBL
UniProt A0A4X1T8W0 ENTREZGENE
  A0A8D1HAX3 ENTREZGENE, UniProtKB/TrEMBL
  I3LA76 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary A0A4X1T8W0 UniProtKB/TrEMBL
VGNC ID VGNC:87984 ENTREZGENE