Rif1 (replication timing regulatory factor 1) - Rat Genome Database

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Gene: Rif1 (replication timing regulatory factor 1) Chinchilla lanigera
Analyze
Symbol: Rif1
Name: replication timing regulatory factor 1
RGD ID: 9030090
Description: INVOLVED IN cellular response to leukemia inhibitory factor (ortholog); DNA damage response (ortholog); negative regulation of double-strand break repair via homologous recombination (ortholog); PARTICIPATES IN ataxia telangiectasia-mutated (ATM) signaling pathway; non-homologous end joining pathway of double-strand break repair; ASSOCIATED WITH Actin-Accumulation Myopathy (ortholog); arthrogryposis multiplex congenita-6 (ortholog); congenital muscular dystrophy (ortholog); FOUND IN chromatin (ortholog); chromosome, telomeric region (ortholog); chromosome, telomeric repeat region (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: RAP1 interacting factor homolog; telomere-associated protein RIF1
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
NCBI Annotation Information: Annotation category: partial on reference assembly
Position:
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544016,979,042 - 17,041,748 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495544016,977,710 - 17,047,809 (+)NCBIChiLan1.0ChiLan1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Transitive Annotation Pipeline Automated assignment of GO, PW and RDO ISO annotations across species
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
Rif1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544016,979,042 - 17,041,748 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495544016,977,710 - 17,047,809 (+)NCBIChiLan1.0ChiLan1.0
RIF1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382151,409,902 - 151,534,435 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2151,409,883 - 151,508,013 (+)EnsemblGRCh38hg38GRCh38
GRCh372152,266,416 - 152,338,686 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362151,974,674 - 152,040,665 (+)NCBINCBI36Build 36hg18NCBI36
Build 342152,091,935 - 152,157,927NCBI
Celera2145,880,663 - 145,948,138 (+)NCBICelera
Cytogenetic Map2q23.3NCBI
HuRef2144,162,934 - 144,230,323 (+)NCBIHuRef
CHM1_12152,272,265 - 152,339,750 (+)NCBICHM1_1
T2T-CHM13v2.02151,861,663 - 151,986,225 (+)NCBIT2T-CHM13v2.0
Rif1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39251,962,725 - 52,016,781 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl251,962,844 - 52,012,395 (+)EnsemblGRCm39 Ensembl
GRCm38252,072,815 - 52,126,769 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl252,072,832 - 52,122,383 (+)EnsemblGRCm38mm10GRCm38
MGSCv37251,928,357 - 51,977,901 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36251,894,841 - 51,944,069 (+)NCBIMGSCv36mm8
Celera253,801,434 - 53,849,273 (+)NCBICelera
Cytogenetic Map2C1.1NCBI
cM Map229.98NCBI
Rif1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8356,963,840 - 57,017,106 (+)NCBIGRCr8
mRatBN7.2336,554,689 - 36,607,961 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl336,554,697 - 36,603,617 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.0337,599,540 - 37,648,818 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl337,599,728 - 37,647,631 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0342,697,416 - 42,746,743 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4333,574,934 - 33,624,794 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera334,698,698 - 34,747,822 (+)NCBICelera
Cytogenetic Map3q12NCBI
RIF1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21354,099,763 - 54,260,321 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12B54,114,717 - 54,275,309 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02B38,721,658 - 38,818,488 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12B155,985,960 - 156,109,726 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B155,985,960 - 156,052,926 (+)Ensemblpanpan1.1panPan2
RIF1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11952,661,278 - 52,711,969 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1952,661,155 - 52,709,279 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1952,823,853 - 52,876,461 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01954,171,299 - 54,224,157 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1954,170,503 - 54,220,826 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11952,884,821 - 52,937,353 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01952,956,937 - 53,009,549 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01954,422,620 - 54,475,318 (+)NCBIUU_Cfam_GSD_1.0
Rif1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303115,511,724 - 115,575,000 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493646926,048,953 - 26,105,997 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493646926,045,500 - 26,105,980 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RIF1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl15774,191 - 832,010 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.115769,518 - 832,036 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.215157,039,785 - 157,101,592 (-)NCBISscrofa10.2Sscrofa10.2susScr3
RIF1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11036,845,751 - 36,937,040 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1036,845,777 - 36,907,015 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666040162,606,462 - 162,698,978 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Rif1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248665,619,758 - 5,680,165 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSCLAT00000002135   ⟹   ENSCLAP00000002090
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495544016,979,042 - 17,041,748 (+)Ensembl
Ensembl Acc Id: ENSCLAT00000002136   ⟹   ENSCLAP00000002091
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495544016,979,042 - 17,041,748 (+)Ensembl
RefSeq Acc Id: XM_013517488   ⟹   XP_013372942
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495544016,977,710 - 17,047,809 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_013372942 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCLAP00000002090
  ENSCLAP00000002090.1
  ENSCLAP00000002091.1
RefSeq Acc Id: XP_013372942   ⟸   XM_013517488
- UniProtKB: A0A8C2UNP4 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSCLAP00000002091   ⟸   ENSCLAT00000002136
Ensembl Acc Id: ENSCLAP00000002090   ⟸   ENSCLAT00000002135
Protein Domains
Telomere-associated protein Rif1 N-terminal


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000001517 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000002135 ENTREZGENE
  ENSCLAT00000002135.1 UniProtKB/TrEMBL
  ENSCLAT00000002136.1 UniProtKB/TrEMBL
InterPro ARM-type_fold UniProtKB/TrEMBL
  Rif1_N UniProtKB/TrEMBL
NCBI Gene Rif1 ENTREZGENE
PANTHER PTHR22928 UniProtKB/TrEMBL
  TELOMERE-ASSOCIATED PROTEIN RIF1 UniProtKB/TrEMBL
Pfam Rif1_N UniProtKB/TrEMBL
Superfamily-SCOP SSF48371 UniProtKB/TrEMBL
UniProt A0A8C2UNP4 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C2UR12_CHILA UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-08-25 Rif1  replication timing regulatory factor 1    RAP1 interacting factor homolog (yeast)  Symbol and/or name change 5135510 APPROVED