2610005L07Rik (RIKEN cDNA 2610005L07 gene) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: 2610005L07Rik (RIKEN cDNA 2610005L07 gene) Mus musculus
Analyze
Symbol: 2610005L07Rik
Name: RIKEN cDNA 2610005L07 gene
RGD ID: 4093677
MGI Page MGI
Description: Acts upstream of or within several processes, including chordate embryonic development; estrogen metabolic process; and luteinization.
Type: pseudo (Ensembl: transcribed_unprocessed_pseudogene)
RefSeq Status: VALIDATED
Previously known as: 2810038F24Rik; 6720476A01Rik
Related Functional Gene: Cdh11  
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39820,016,466 - 20,055,498 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl820,030,715 - 20,045,888 (+)EnsemblGRCm39 Ensembl
GRCm39 Ensembl820,016,466 - 20,055,498 (+)EnsemblGRCm39 Ensembl
GRCm38820,385,782 - 20,424,814 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl820,385,782 - 20,424,814 (-)EnsemblGRCm38mm10GRCm38
MGSCv37819,981,360 - 20,020,392 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36820,384,173 - 20,439,192 (-)NCBIMGSCv36mm8
Celera184,245,148 - 4,246,351 (-)NCBICelera
Cytogenetic Map8A1.3NCBI
cM Map810.35NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


References

References - curated
# Reference Title Reference Citation
1. Mouse MP Annotation Import Pipeline RGD automated import pipeline
Additional References at PubMed
PMID:8889548   PMID:10349636   PMID:10922068   PMID:11042159   PMID:11076861   PMID:11217851   PMID:11544199   PMID:12466851   PMID:12477932   PMID:12520002   PMID:15782199   PMID:16141072  
PMID:16141073   PMID:17143286   PMID:19056881  


Genomics

Variants

.
Variants in 2610005L07Rik
265 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:472
Count of miRNA genes:364
Interacting mature miRNAs:398
Transcripts:ENSMUST00000139264, ENSMUST00000140111, ENSMUST00000167037
Prediction methods:Microtar, 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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
13432571Scvg1_msubcutaneous vessel growth QTL 1 (mouse)8124751082Mouse
11533914Mts5_mmammary tumor susceptibility 5 (mouse)8130447432Mouse
4140978Nilac5_mnicotine induced locomotor activity 5 (mouse)Not determined8131773288Mouse
27226756Femd2_mfemur midshaft diameter 2, 5 week (mouse)8495000035067154Mouse
1357525Pnhdlc3_mplasma non-HDL cholesterol 3 (mouse)Not determined8721249923753815Mouse
1301532Scc8_mcolon tumor susceptibility 8 (mouse)Not determined8721249935110107Mouse
1300906Ap8q_malcohol preference 8 QTL (mouse)Not determined8798418941984342Mouse
10412209Cypr7_mcytokine production 7 (mouse)Not determined8810320142103372Mouse
1301929Eae24_msusceptibility to experimental allergic encephalomyelitis 24 (mouse)Not determined8810320142103372Mouse
1301128Sluc20_msusceptibility to lung cancer 20 (mouse)Not determined8810320142103372Mouse
11532713Sluc42_msusceptibility to lung cancer 42 (mouse)81344721035321225Mouse
1558870Eae36_mexperimental allergic encephalomyelitis susceptibility 36 (mouse)Not determined81477316071498244Mouse
1301088Alcw6_malcohol withdrawal 6 (mouse)Not determined81550657249506729Mouse
1300912Daq19_mdirectional asymmetry QTL 19 (mouse)Not determined81550657249506729Mouse
1301298Pgia4_mproteoglycan induced arthritis 4 (mouse)Not determined81656937350569697Mouse
4142199Poats1_mpost-ovarectomy adrenal tumor susceptibility 1 (mouse)Not determined1708262628849467Mouse
1301550Fembrs2_mfemur breaking strength 2 (mouse)Not determined81832109752321225Mouse
1301160Eae14_msusceptibility to experimental allergic encephalomyelitis 14 (mouse)Not determined81945501853455150Mouse
1300603Cd8ts2_mCD8 T cell subset 2 (mouse)Not determined81945501853455150Mouse

Markers in Region
RH125512  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map8A1.3UniSTS


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NR_028428 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC152164 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK009182 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK011323 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK012880 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK017816 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK035187 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK035547 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK036306 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK078449 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK081322 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK084784 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK131627 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK134636 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK160987 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK161064 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK164389 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK190165 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK193776 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC007164 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC025151 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC038125 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC058969 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC064022 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC086760 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC086761 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U35665 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSMUST00000139264
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl820,030,715 - 20,045,888 (+)Ensembl
GRCm38.p6 Ensembl820,395,392 - 20,410,565 (-)Ensembl
RefSeq Acc Id: ENSMUST00000140111
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl820,016,466 - 20,055,498 (+)Ensembl
GRCm38.p6 Ensembl820,385,782 - 20,424,814 (-)Ensembl
RefSeq Acc Id: NR_028428
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39820,016,466 - 20,055,498 (+)NCBI
GRCm38820,385,782 - 20,424,814 (-)ENTREZGENE
MGSCv37819,981,360 - 20,020,392 (-)RGD
Celera84,245,148 - 4,246,351 (-)RGD
cM Map8 ENTREZGENE
Sequence:
Protein Sequences
GenBank Protein AAH25151 (Get FASTA)   NCBI Sequence Viewer  
  AAH58969 (Get FASTA)   NCBI Sequence Viewer  
  BAE36133 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
Protein Domains
Cadherin

Promoters
RGD ID:8666589
Promoter ID:EPDNEW_M11326
Type:multiple initiation site
Name:2610005L07Rik-1_1
Description:Mus musculus RIKEN cDNA 2610005L07 gene , non-coding RNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38820,424,793 - 20,424,853EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSMUSG00000071793 Ensembl
  ENSMUSG00000121345 Ensembl, ENTREZGENE
Ensembl Transcript ENSMUST00000140111 ENTREZGENE
Gene3D-CATH Cadherins UniProtKB/TrEMBL
InterPro Cadherin UniProtKB/TrEMBL
  Cadherin UniProtKB/TrEMBL
  Cadherin-like UniProtKB/TrEMBL
MGD MGI:1914283 ENTREZGENE
NCBI Gene 381598 ENTREZGENE
PANTHER CADHERIN-11 UniProtKB/TrEMBL
  PTHR24027 UniProtKB/TrEMBL
Pfam Cadherin UniProtKB/TrEMBL
PhenoGen 2610005L07Rik PhenoGen
PRINTS CADHERIN UniProtKB/TrEMBL
PROSITE CADHERIN_2 UniProtKB/TrEMBL
SMART SM00112 UniProtKB/TrEMBL
Superfamily-SCOP Cadherin UniProtKB/TrEMBL
UniProt Q05CI6_MOUSE UniProtKB/TrEMBL
  Q3TU38_MOUSE UniProtKB/TrEMBL
  Q6PD33_MOUSE UniProtKB/TrEMBL