Tipinl1 (TIMELESS interacting protein like 1) - Rat Genome Database

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Gene: Tipinl1 (TIMELESS interacting protein like 1) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Tipinl1
Name: TIMELESS interacting protein like 1
RGD ID: 2323509
Description: Predicted to enable DNA binding activity. Predicted to be involved in DNA replication checkpoint signaling and replication fork arrest. Predicted to be part of replication fork protection complex. Orthologous to human TIPIN (TIMELESS interacting protein); INTERACTS WITH atrazine; bisphenol A; paracetamol.
Type: protein-coding
RefSeq Status: MODEL
Previously known as: LOC100359731; timeless interacting protein
RGD Orthologs
Alliance Genes
More Info homologs ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.29113,542,841 - 113,544,022 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl9113,543,173 - 113,605,998 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.05173,761 - 174,959 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5173,744 - 174,921 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05172,790 - 173,975 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.49112,832,275 - 112,833,123 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Cytogenetic Map5q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function
DNA binding  (IBA)

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. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:21
Count of miRNA genes:21
Interacting mature miRNAs:21
Transcripts:ENSRNOT00000056239
Prediction methods: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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
724544Uae9Urinary albumin excretion QTL 94.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)925268044114175309Rat

Markers in Region
BE100135  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.29113,543,816 - 113,543,968 (+)MAPPERmRatBN7.2
mRatBN7.2864,786,090 - 64,786,888 (+)MAPPERmRatBN7.2
mRatBN7.29113,694,228 - 113,694,380 (+)MAPPERmRatBN7.2
Rnor_6.05174,729 - 174,880NCBIRnor6.0
Rnor_6.0869,753,390 - 69,754,187NCBIRnor6.0
Rnor_5.05173,744 - 173,895UniSTSRnor5.0
RGSC_v3.49112,832,937 - 112,833,088UniSTSRGSC3.4
Celera864,192,544 - 64,193,340UniSTS
RH 3.4 Map9867.0UniSTS
Cytogenetic Map9q38UniSTS
Cytogenetic Map8q24UniSTS


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 3 28 26 20 11 20 60 20 30 4
Low 15 31 21 8 21 8 11 14 15 11 7 8
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_002730066 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JACYVU010000215 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000056239   ⟹   ENSRNOP00000053083
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl9113,543,173 - 113,605,998 (-)Ensembl
Rnor_6.0 Ensembl5173,744 - 174,921 (-)Ensembl
RefSeq Acc Id: XM_002730066   ⟹   XP_002730112
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.29113,542,841 - 113,544,022 (-)NCBI
Rnor_6.05173,761 - 174,959 (-)NCBI
Rnor_5.05172,790 - 173,975 (-)NCBI
RGSC_v3.49112,832,275 - 112,833,123 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs XP_002730112 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_002730112   ⟸   XM_002730066
- UniProtKB: F1LM96 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000053083   ⟸   ENSRNOT00000056239
Protein Domains
Chromosome segregation in meiosis protein

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F1LM96-F1-model_v2 AlphaFold F1LM96 1-276 view protein structure

Transcriptome

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

Promoters
RGD ID:13693528
Promoter ID:EPDNEW_R4043
Type:multiple initiation site
Name:Tipinl1_1
Description:TIMELESS interacting protein like 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.05174,949 - 175,009EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2323509 AgrOrtholog
BioCyc Gene G2FUF-26296 BioCyc
Ensembl Genes ENSRNOG00000037221 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000053083 ENTREZGENE
  ENSRNOP00000053083.2 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000056239 ENTREZGENE
  ENSRNOT00000056239.3 UniProtKB/TrEMBL
InterPro Swi3 UniProtKB/TrEMBL
  TIPIN/Csm3/Swi3 UniProtKB/TrEMBL
KEGG Report rno:100359731 UniProtKB/TrEMBL
NCBI Gene 100359731 ENTREZGENE
PANTHER PTHR13220 UniProtKB/TrEMBL
  TIMELESS-INTERACTING PROTEIN UniProtKB/TrEMBL
Pfam Swi3 UniProtKB/TrEMBL
PhenoGen Tipinl1 PhenoGen
UniProt F1LM96 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-07-24 Tipinl1  TIMELESS interacting protein like 1  LOC100359731  timeless interacting protein  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-05-06 LOC100359731  timeless interacting protein      Symbol and Name status set to provisional 70820 PROVISIONAL