Yipf7 (Yip1 domain family, member 7) - Rat Genome Database

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Gene: Yipf7 (Yip1 domain family, member 7) Rattus norvegicus
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Symbol: Yipf7
Name: Yip1 domain family, member 7
RGD ID: 1310766
Description: Predicted to be involved in endoplasmic reticulum to Golgi vesicle-mediated transport and vesicle fusion with Golgi apparatus. Predicted to act upstream of or within Golgi organization. Predicted to be located in cis-Golgi network and endoplasmic reticulum-Golgi intermediate compartment. Predicted to be active in trans-Golgi network. Orthologous to human YIPF7 (Yip1 domain family member 7); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; alpha-Zearalanol; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC364147; RGD1310766; similar to YIP1B
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81438,924,994 - 38,953,021 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1438,911,104 - 38,953,021 (+)EnsemblGRCr8
mRatBN7.21438,571,045 - 38,599,070 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1438,571,066 - 38,599,055 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1438,946,914 - 38,974,916 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01440,246,946 - 40,274,950 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01438,727,797 - 38,755,795 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01462,565,369 - 62,609,529 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1462,567,745 - 62,595,854 (-)Ensemblrn6Rnor6.0
Rnor_5.01462,670,745 - 62,712,404 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41441,101,422 - 41,129,397 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1437,769,700 - 37,797,671 (+)NCBICelera
RGSC_v3.11441,105,264 - 41,131,786 (+)NCBI
Cytogenetic Map14p11NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

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. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
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

Genomics

Comparative Map Data
Yipf7
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81438,924,994 - 38,953,021 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1438,911,104 - 38,953,021 (+)EnsemblGRCr8
mRatBN7.21438,571,045 - 38,599,070 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1438,571,066 - 38,599,055 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1438,946,914 - 38,974,916 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01440,246,946 - 40,274,950 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01438,727,797 - 38,755,795 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01462,565,369 - 62,609,529 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1462,567,745 - 62,595,854 (-)Ensemblrn6Rnor6.0
Rnor_5.01462,670,745 - 62,712,404 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41441,101,422 - 41,129,397 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1437,769,700 - 37,797,671 (+)NCBICelera
RGSC_v3.11441,105,264 - 41,131,786 (+)NCBI
Cytogenetic Map14p11NCBI
YIPF7
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38444,622,088 - 44,662,199 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl444,622,088 - 44,678,795 (-)Ensemblhg38GRCh38
GRCh37444,624,105 - 44,653,642 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36444,319,111 - 44,348,415 (-)NCBIBuild 36Build 36hg18NCBI36
Celera445,072,378 - 45,101,680 (-)NCBICelera
Cytogenetic Map4p12NCBI
HuRef443,946,015 - 43,975,311 (-)NCBIHuRef
CHM1_1444,623,505 - 44,652,774 (-)NCBICHM1_1
T2T-CHM13v2.0444,589,027 - 44,629,123 (-)NCBIT2T-CHM13v2.0
Yipf7
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39569,674,013 - 69,699,990 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl569,674,014 - 69,699,991 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm38569,516,670 - 69,542,647 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl569,516,671 - 69,542,648 (-)Ensemblmm10GRCm38
MGSCv37569,907,914 - 69,933,871 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36569,795,810 - 69,821,767 (-)NCBIMGSCv36mm8
Celera566,801,335 - 66,826,264 (-)NCBICelera
Cytogenetic Map5C3.1NCBI
cM Map537.13NCBI
Yipf7
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554433,405,311 - 3,428,415 (+)Ensembl
ChiLan1.0NW_0049554433,405,515 - 3,427,774 (+)NCBIChiLan1.0ChiLan1.0
YIPF7
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2344,818,853 - 44,874,984 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1445,005,275 - 45,061,634 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0438,951,616 - 39,007,954 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1444,801,465 - 44,843,562 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl444,801,465 - 44,830,661 (-)EnsemblpanPan2panpan1.1
YIPF7
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11341,138,866 - 41,181,763 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1341,138,779 - 41,164,844 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1341,091,901 - 41,134,802 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01341,745,574 - 41,789,077 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1341,745,495 - 41,772,046 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11341,425,652 - 41,468,559 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01341,470,280 - 41,513,446 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01341,863,030 - 41,905,965 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
YIPF7
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl835,134,654 - 35,159,154 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1835,135,338 - 35,161,003 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2836,840,802 - 36,866,752 (-)NCBISscrofa10.2Sscrofa10.2susScr3
YIPF7
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1275,611,109 - 5,665,483 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl275,636,522 - 5,665,563 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366604751,759,129 - 51,813,556 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Yipf7
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462476122,330,465 - 22,358,794 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462476122,308,984 - 22,358,592 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Yipf7
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11126,554,150 - 26,575,366 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Yipf7
266 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:220
Count of miRNA genes:153
Interacting mature miRNAs:170
Transcripts:ENSRNOT00000003024
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2313089Bss81Bone structure and strength QTL 813.40.0001body length (VT:0001256)body length, nose to rump (CMO:0000079)143802371083023710Rat
731183Pia20Pristane induced arthritis QTL 203.55joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)14939329839411170Rat
9589814Gluco67Glucose level QTL 674.540.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)14140068101Rat
7411573Bw139Body weight QTL 1394.70.001body mass (VT:0001259)body weight gain (CMO:0000420)14140068101Rat
1300154Bp189Blood pressure QTL 1893.04arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)143123808072970315Rat
70187Pancm5Pancreatic morphology QTL 516.7pancreas mass (VT:0010144)pancreas weight to body weight ratio (CMO:0000630)143067446985041098Rat
2324617Coatc2Coat color QTL 20.001coat/hair pigmentation trait (VT:0010463)pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)143112133339507682Rat
631523Pia13Pristane induced arthritis QTL 133.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1433424686102238540Rat
1358296Ael3Aortic elastin QTL 33.70.00051aorta elastin amount (VT:0003905)aortic elastin14862139853621398Rat
61420Pia6Pristane induced arthritis QTL 64.9joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)141891545442433608Rat
2313100Bss82Bone structure and strength QTL 8230.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)143802371083023710Rat
7387267Uae42Urinary albumin excretion QTL 420.61urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)142252151767521517Rat
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1411334716100078267Rat
2313397Coatc1Coat color QTL1coat/hair pigmentation trait (VT:0010463)coat/hair color measurement (CMO:0001808)141889519263895192Rat
631262Tcas4Tongue tumor susceptibility QTL 47.29tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)141790672654251504Rat
634352Apr6Acute phase response QTL 63.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)14141415516Rat
2313048Bss84Bone structure and strength QTL 843.10.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)143802371083023710Rat
2302045Pia39Pristane induced arthritis QTL 394.90.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G2a level (CMO:0002116)14862139853621398Rat
2313084Bss83Bone structure and strength QTL 832.90.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)143802371083023710Rat

Markers in Region
RH132941  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21438,598,790 - 38,598,970 (-)MAPPERmRatBN7.2
Rnor_6.01462,567,941 - 62,568,120NCBIRnor6.0
Rnor_5.01462,670,845 - 62,671,024UniSTSRnor5.0
RGSC_v3.41441,129,118 - 41,129,297UniSTSRGSC3.4
Celera1437,797,392 - 37,797,571UniSTS
Cytogenetic Map14p11UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
9 11 61 79 44 44 16 46 16 6 197 137 9 54 27 49 28 3 3

Sequence


Ensembl Acc Id: ENSRNOT00000003024   ⟹   ENSRNOP00000003024
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1438,911,248 - 38,953,021 (+)Ensembl
mRatBN7.2 Ensembl1438,571,066 - 38,599,055 (+)Ensembl
Rnor_6.0 Ensembl1462,567,745 - 62,595,854 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000161549   ⟹   ENSRNOP00000108272
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1438,911,104 - 38,953,021 (+)Ensembl
RefSeq Acc Id: NM_001108861   ⟹   NP_001102331
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81438,925,045 - 38,953,021 (+)NCBI
mRatBN7.21438,571,096 - 38,599,070 (+)NCBI
Rnor_6.01462,567,841 - 62,595,814 (-)NCBI
Rnor_5.01462,670,745 - 62,712,404 (-)NCBI
RGSC_v3.41441,101,422 - 41,129,397 (+)RGD
Celera1437,769,700 - 37,797,671 (+)RGD
Sequence:
RefSeq Acc Id: XM_006251037   ⟹   XP_006251099
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81438,924,994 - 38,953,017 (+)NCBI
mRatBN7.21438,571,045 - 38,599,066 (+)NCBI
Rnor_6.01462,565,369 - 62,595,835 (-)NCBI
Rnor_5.01462,670,745 - 62,712,404 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001102331 (Get FASTA)   NCBI Sequence Viewer  
  NP_001423927 (Get FASTA)   NCBI Sequence Viewer  
  XP_006251099 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL90014 (Get FASTA)   NCBI Sequence Viewer  
  EDL90015 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000003024
  ENSRNOP00000003024.5
  ENSRNOP00000108272.1
RefSeq Acc Id: NP_001102331   ⟸   NM_001108861
- UniProtKB: D3ZHE2 (UniProtKB/TrEMBL),   A6JD92 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006251099   ⟸   XM_006251037
- Peptide Label: isoform X1
- Sequence:
Ensembl Acc Id: ENSRNOP00000003024   ⟸   ENSRNOT00000003024
Ensembl Acc Id: ENSRNOP00000108272   ⟸   ENSRNOT00000161549
Protein Domains
Yip1

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZHE2-F1-model_v2 AlphaFold D3ZHE2 1-256 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:1310766 AgrOrtholog
BioCyc Gene G2FUF-15815 BioCyc
Ensembl Genes ENSRNOG00000002224 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000003024 ENTREZGENE
  ENSRNOT00000003024.8 UniProtKB/TrEMBL
  ENSRNOT00000161549.1 UniProtKB/TrEMBL
InterPro Yip1/4-like UniProtKB/TrEMBL
  Yip1_dom UniProtKB/TrEMBL
KEGG Report rno:364147 UniProtKB/TrEMBL
NCBI Gene 364147 ENTREZGENE
PANTHER PROTEIN YIPF7 UniProtKB/TrEMBL
  PTHR21236 UniProtKB/TrEMBL
Pfam Yip1 UniProtKB/TrEMBL
PhenoGen Yipf7 PhenoGen
RatGTEx ENSRNOG00000002224 RatGTEx
UniProt A0ABK0LC96_RAT UniProtKB/TrEMBL
  A6JD92 ENTREZGENE, UniProtKB/TrEMBL
  D3ZHE2 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-02-27 Yipf7  Yip1 domain family, member 7  RGD1310766_predicted  similar to YIP1B (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 RGD1310766_predicted  similar to YIP1B (predicted)  LOC364147_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC364147_predicted  similar to YIP1B (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL