Ripply1 (ripply transcriptional repressor 1) - Rat Genome Database

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Gene: Ripply1 (ripply transcriptional repressor 1) Rattus norvegicus
Analyze
Symbol: Ripply1
Name: ripply transcriptional repressor 1
RGD ID: 1588264
Description: Predicted to be involved in embryonic pattern specification and negative regulation of transcription by RNA polymerase II. Predicted to act upstream of or within several processes, including Notch signaling pathway; bone morphogenesis; and somite rostral/caudal axis specification. Predicted to be active in nucleus. Orthologous to human RIPPLY1 (ripply transcriptional repressor 1); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine (ortholog); 4,4'-sulfonyldiphenol (ortholog); cadmium atom (ortholog).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC680702; ripply1 homolog; ripply1 homolog (zebrafish); similar to Down syndrome critical region homolog 6
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X108,225,333 - 108,231,537 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 EnsemblX108,220,656 - 108,229,064 (-)EnsemblGRCr8
mRatBN7.2X103,436,731 - 103,440,904 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX103,436,729 - 103,443,349 (-)EnsemblmRatBN7.2
Rnor_6.0X111,099,420 - 111,114,835 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX111,099,930 - 111,102,464 (-)Ensemblrn6Rnor6.0
Rnor_5.0353,488,763 - 53,495,704 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4X127,516,006 - 127,518,663 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera344,484,028 - 44,490,937 (+)NCBICelera
Cytogenetic MapXq32NCBI
JBrowse:




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

Cellular Component
nucleus  (IBA,IEA)

Molecular Function

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
Additional References at PubMed
PMID:20346937  


Genomics

Comparative Map Data
Ripply1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X108,225,333 - 108,231,537 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 EnsemblX108,220,656 - 108,229,064 (-)EnsemblGRCr8
mRatBN7.2X103,436,731 - 103,440,904 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX103,436,729 - 103,443,349 (-)EnsemblmRatBN7.2
Rnor_6.0X111,099,420 - 111,114,835 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX111,099,930 - 111,102,464 (-)Ensemblrn6Rnor6.0
Rnor_5.0353,488,763 - 53,495,704 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4X127,516,006 - 127,518,663 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera344,484,028 - 44,490,937 (+)NCBICelera
Cytogenetic MapXq32NCBI
RIPPLY1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X106,900,063 - 106,903,341 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX106,900,063 - 106,903,341 (-)Ensemblhg38GRCh38
GRCh37X106,143,293 - 106,146,571 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36X106,030,104 - 106,033,217 (-)NCBIBuild 36Build 36hg18NCBI36
CeleraX106,614,678 - 106,617,946 (-)NCBICelera
Cytogenetic MapXq22.3NCBI
HuRefX95,771,654 - 95,774,579 (-)NCBIHuRef
CHM1_1X106,054,099 - 106,057,367 (-)NCBICHM1_1
T2T-CHM13v2.0X105,336,573 - 105,339,851 (-)NCBIT2T-CHM13v2.0
Ripply1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X138,680,430 - 138,683,102 (-)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX138,680,298 - 138,683,102 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm38X139,779,681 - 139,782,353 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX139,779,549 - 139,782,353 (-)Ensemblmm10GRCm38
MGSCv37X136,314,220 - 136,316,892 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36X135,126,012 - 135,128,717 (-)NCBIMGSCv36mm8
CeleraX123,042,286 - 123,044,955 (-)NCBICelera
Cytogenetic MapXF1NCBI
cM MapX61.35NCBI
Ripply1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554909,167,183 - 9,169,773 (+)Ensembl
ChiLan1.0NW_0049554909,167,071 - 9,172,101 (+)NCBIChiLan1.0ChiLan1.0
RIPPLY1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X106,378,121 - 106,386,826 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X106,384,913 - 106,390,427 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X95,998,718 - 96,003,843 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X106,377,932 - 106,381,193 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX106,377,932 - 106,381,193 (-)EnsemblpanPan2panpan1.1
RIPPLY1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X80,457,529 - 80,461,281 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX80,457,912 - 80,460,765 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_TashaX66,576,613 - 66,584,440 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0X82,100,917 - 82,108,742 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX82,101,300 - 82,104,153 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X79,565,821 - 79,573,644 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X81,275,674 - 81,283,507 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X81,054,482 - 81,062,303 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Ripply1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X79,809,010 - 79,812,866 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364997,846,041 - 7,848,400 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049364997,845,180 - 7,848,954 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RIPPLY1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX87,315,358 - 87,319,113 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1X87,315,355 - 87,319,580 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X101,723,142 - 101,726,976 (-)NCBISscrofa10.2Sscrofa10.2susScr3
RIPPLY1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X94,730,858 - 94,735,220 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366606519,816,939 - 19,824,286 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ripply1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248039,868,707 - 9,879,909 (+)NCBIHetGla 1.0HetGla 1.0hetGla2

Variants

.
Variants in Ripply1
6 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:29
Count of miRNA genes:27
Interacting mature miRNAs:29
Transcripts:ENSRNOT00000074284
Prediction methods: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
1598872Memor14Memory QTL 144.5exploratory behavior trait (VT:0010471)difference between duration of physical contact or close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X93956491138956491Rat
1598856Memor1Memory QTL 11.9exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)X103312877148312877Rat
1598809Memor15Memory QTL 154.4exploratory behavior trait (VT:0010471)difference between duration of physical contact or close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X103312877148312877Rat
738025Stresp3Stress response QTL 34.610.0066stress-related behavior trait (VT:0010451)defensive burying - approachX100567703150256146Rat
61430Cia18Collagen induced arthritis QTL 183.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X14843113120568734Rat
61431Cia19Collagen induced arthritis QTL 194.4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X65612192120568734Rat
738035Stresp1Stress response QTL 14.960.000011stress-related behavior trait (VT:0010451)defensive burying - copingX41304447112935181Rat
724551Glom1Glomerulus QTL 12.80.0004kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)X75294106120294106Rat
1598837Memor13Memory QTL 133.2exploratory behavior trait (VT:0010471)difference between duration of physical contact or close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X41052407146860749Rat

Markers in Region
RH134657  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X103,436,904 - 103,437,104 (+)MAPPERmRatBN7.2
Rnor_6.0X111,099,594 - 111,099,793NCBIRnor6.0
Rnor_5.0353,495,331 - 53,495,530UniSTSRnor5.0
RGSC_v3.4X127,515,673 - 127,515,872UniSTSRGSC3.4
Celera344,490,564 - 44,490,763UniSTS
RH 3.4 Map71125.82UniSTS
Cytogenetic MapXq35UniSTS


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
16 11 30 52 60 66 45 18 45 6 207 65 5 40 73 50 21 2 2

Sequence


Ensembl Acc Id: ENSRNOT00000084176   ⟹   ENSRNOP00000074028
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 EnsemblX108,225,425 - 108,229,064 (-)Ensembl
mRatBN7.2 EnsemblX103,436,729 - 103,443,349 (-)Ensembl
Rnor_6.0 EnsemblX111,099,930 - 111,102,464 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000097003   ⟹   ENSRNOP00000094355
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 EnsemblX108,225,367 - 108,228,599 (-)Ensembl
mRatBN7.2 EnsemblX103,436,729 - 103,440,822 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000170292   ⟹   ENSRNOP00000106017
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 EnsemblX108,220,656 - 108,229,064 (-)Ensembl
RefSeq Acc Id: XM_039100456   ⟹   XP_038956384
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X108,225,333 - 108,229,452 (-)NCBI
mRatBN7.2X103,436,731 - 103,440,904 (-)NCBI
RefSeq Acc Id: XM_063280530   ⟹   XP_063136600
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X108,225,333 - 108,231,537 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001420084 (Get FASTA)   NCBI Sequence Viewer  
  XP_038956384 (Get FASTA)   NCBI Sequence Viewer  
  XP_063136600 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000074028.2
  ENSRNOP00000094355
  ENSRNOP00000094355.1
Ensembl Acc Id: ENSRNOP00000074028   ⟸   ENSRNOT00000084176
RefSeq Acc Id: XP_038956384   ⟸   XM_039100456
- Peptide Label: isoform X1
- UniProtKB: A0A8I6B0B3 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000094355   ⟸   ENSRNOT00000097003
RefSeq Acc Id: XP_063136600   ⟸   XM_063280530
- Peptide Label: isoform X2
Ensembl Acc Id: ENSRNOP00000106017   ⟸   ENSRNOT00000170292

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2K721-F1-model_v2 AlphaFold A0A0G2K721 1-182 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:1588264 AgrOrtholog
BioCyc Gene G2FUF-1554 BioCyc
Ensembl Genes ENSRNOG00000061101 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000084176.2 UniProtKB/TrEMBL
  ENSRNOT00000097003 ENTREZGENE
  ENSRNOT00000097003.1 UniProtKB/TrEMBL
InterPro Ripply_fam UniProtKB/TrEMBL
NCBI Gene 680702 ENTREZGENE
PANTHER PROTEIN RIPPLY1 UniProtKB/TrEMBL
  PTHR16770 UniProtKB/TrEMBL
Pfam Ripply UniProtKB/TrEMBL
PhenoGen Ripply1 PhenoGen
RatGTEx ENSRNOG00000061101 RatGTEx
UniProt A0A0G2K721_RAT UniProtKB/TrEMBL
  A0A8I6B0B3 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-08-07 Ripply1  ripply transcriptional repressor 1  Ripply1  ripply1 homolog (zebrafish)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-05 Ripply1  ripply1 homolog (zebrafish)  LOC680702  similar to Down syndrome critical region homolog 6  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-19 LOC680702  similar to Down syndrome critical region homolog 6      Symbol and Name status set to provisional 70820 PROVISIONAL