2700097O09Rikl (RIKEN cDNA 2700097009 gene like) - Rat Genome Database

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Gene: 2700097O09Rikl (RIKEN cDNA 2700097009 gene like) Rattus norvegicus
Analyze
No known orthologs.
Symbol: 2700097O09Rikl (Ensembl: RGD1304624)
Name: RIKEN cDNA 2700097009 gene like (Ensembl:similar to RIKEN cDNA 2700097O09)
RGD ID: 1304624
Description: Predicted to enable methyltransferase activity; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; endosulfan; gentamycin.
Type: protein-coding
RefSeq Status: PREDICTED
Previously known as: hypothetical protein LOC314128; LOC314128; RGD1304624; similar to RIKEN cDNA 2700097O09; uncharacterized protein LOC314128
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8678,277,757 - 78,322,329 (-)NCBIGRCr8
mRatBN7.2672,542,166 - 72,587,511 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl672,542,613 - 72,587,235 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx672,964,993 - 73,009,649 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0673,271,343 - 73,315,998 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0672,699,867 - 72,744,608 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0675,945,889 - 75,996,483 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl675,945,889 - 75,996,216 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0685,483,144 - 85,532,274 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4675,393,621 - 75,446,411 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1675,396,917 - 75,449,868 (-)NCBI
Celera671,385,189 - 71,428,446 (-)NCBICelera
Cytogenetic Map6q23NCBI
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

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. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Variants

.
Variants in 2700097O09Rikl
275 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:165
Count of miRNA genes:109
Interacting mature miRNAs:119
Transcripts:ENSRNOT00000009180
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
4145119Mcs25Mammary carcinoma susceptibility QTL 250.0001mammary gland integrity trait (VT:0010552)ratio of deaths to total study population during a period of time (CMO:0001023)610894415110548006Rat
1578665Bss16Bone structure and strength QTL 164.4femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)61173566972593685Rat
1578668Bmd14Bone mineral density QTL 143.8femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)61173566972593685Rat
1576309Emca7Estrogen-induced mammary cancer QTL 74mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)615107216107351382Rat
2293839Kiddil2Kidney dilation QTL 24.8kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)62086642281133036Rat
2293841Kiddil4Kidney dilation QTL 44.4kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)62086642281133036Rat
6893340Cm77Cardiac mass QTL 770.260.57heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)63330954981132889Rat
1300143Rf14Renal function QTL 142.92renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)63443413777102317Rat
634307Bp141Blood pressure QTL 1414arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)63523041780230417Rat
9590290Uminl2Urine mineral level QTL 23.960.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)63878398983783989Rat
9590306Scort18Serum corticosterone level QTL 182.880.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)63878398983783989Rat
9590140Scort4Serum corticosterone level QTL 414.490.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)63878398983783989Rat
634330Pia16Pristane induced arthritis QTL 163.9joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)645790088104200226Rat
4889848Pur25Proteinuria QTL 25140.003urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)65672856290198260Rat
6893332Cm74Cardiac mass QTL 740.40.64heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)657730540104085867Rat
1558641Cm47Cardiac mass QTL 472.90.001heart mass (VT:0007028)heart wet weight (CMO:0000069)657730540104085867Rat
70176Mcsm1Mammary carcinoma susceptibility modifier QTL 1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)658632962103632962Rat
12801471Schws9Schwannoma susceptibility QTL 9nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)661747639106747639Rat
731173Uae22Urinary albumin excretion QTL 2210.1urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)665531555140994061Rat
2290393Uae37Urinary albumin excretion QTL 370.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)665531555140994061Rat
1641904Alcrsp4Alcohol response QTL 4response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)667262953112262953Rat
1300075Glom7Glomerulus QTL 75.60.0000002kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)671201409116201409Rat
1331789Rf37Renal function QTL 373.224kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)672202632115200186Rat
70196BpQTLcluster7Blood pressure QTL cluster 76.82arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)672202632117202632Rat
724536Uae7Urinary albumin excretion QTL 73.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)672202632130729475Rat
1331799Bp211Blood pressure QTL 2113.66407arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)672202632130919985Rat
2301964Bp323Blood pressure QTL 3234.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)67222764181132889Rat
1581550Pur8Proteinuria QTL 8urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)672227641130729205Rat
1581563Uae33Urinary albumin excretion QTL 33urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)672227641130729205Rat

Markers in Region
RH135234  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2672,545,274 - 72,545,427 (+)MAPPERmRatBN7.2
Rnor_6.0675,948,565 - 75,948,717NCBIRnor6.0
Rnor_5.0685,485,820 - 85,485,972UniSTSRnor5.0
RGSC_v3.4675,396,297 - 75,396,449UniSTSRGSC3.4
Celera671,387,871 - 71,388,023UniSTS
Cytogenetic Map6q23UniSTS


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 4 12 12 12 54 14 28 1
Low 3 39 45 29 19 29 8 11 20 21 13 10 8
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001108022 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006240102 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112231 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112232 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112233 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112236 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063261910 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063261911 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063261912 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063261913 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005505513 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005505514 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005505515 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide CH473947 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ212699 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ226302 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000006 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000009180   ⟹   ENSRNOP00000009180
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl672,542,613 - 72,587,235 (-)Ensembl
Rnor_6.0 Ensembl675,945,889 - 75,996,216 (-)Ensembl
RefSeq Acc Id: NM_001108022   ⟹   NP_001101492
RefSeq Status: PREDICTED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8678,277,757 - 78,322,326 (-)NCBI
mRatBN7.2672,542,599 - 72,587,170 (-)NCBI
Rnor_6.0675,945,889 - 75,996,216 (-)NCBI
Rnor_5.0685,483,144 - 85,532,274 (-)NCBI
RGSC_v3.4675,393,621 - 75,446,411 (-)RGD
Celera671,385,189 - 71,428,446 (-)RGD
Sequence:
RefSeq Acc Id: XM_006240102   ⟹   XP_006240164
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8678,285,587 - 78,322,329 (-)NCBI
mRatBN7.2672,550,425 - 72,587,374 (-)NCBI
Rnor_6.0675,953,373 - 75,996,483 (-)NCBI
Rnor_5.0685,483,144 - 85,532,274 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039112231   ⟹   XP_038968159
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8678,285,587 - 78,322,329 (-)NCBI
mRatBN7.2672,550,425 - 72,587,374 (-)NCBI
RefSeq Acc Id: XM_039112232   ⟹   XP_038968160
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8678,286,042 - 78,322,329 (-)NCBI
mRatBN7.2672,550,892 - 72,587,374 (-)NCBI
RefSeq Acc Id: XM_039112233   ⟹   XP_038968161
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8678,281,059 - 78,322,329 (-)NCBI
mRatBN7.2672,545,901 - 72,587,374 (-)NCBI
RefSeq Acc Id: XM_039112236   ⟹   XP_038968164
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8678,285,587 - 78,322,329 (-)NCBI
mRatBN7.2672,550,425 - 72,587,374 (-)NCBI
RefSeq Acc Id: XM_063261910   ⟹   XP_063117980
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8678,277,771 - 78,322,321 (-)NCBI
RefSeq Acc Id: XM_063261911   ⟹   XP_063117981
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8678,277,771 - 78,322,322 (-)NCBI
RefSeq Acc Id: XM_063261912   ⟹   XP_063117982
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8678,291,732 - 78,322,329 (-)NCBI
RefSeq Acc Id: XM_063261913   ⟹   XP_063117983
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8678,286,041 - 78,322,329 (-)NCBI
RefSeq Acc Id: XR_005505513
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8678,281,028 - 78,322,329 (-)NCBI
mRatBN7.2672,545,870 - 72,587,374 (-)NCBI
RefSeq Acc Id: XR_005505514
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8678,285,775 - 78,322,329 (-)NCBI
mRatBN7.2672,550,616 - 72,587,374 (-)NCBI
RefSeq Acc Id: XR_005505515
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8678,278,012 - 78,322,329 (-)NCBI
mRatBN7.2672,542,750 - 72,587,374 (-)NCBI
Reference Protein Sequences
RefSeq Acc Id: NP_001101492   ⟸   NM_001108022
- UniProtKB: D4A3D3 (UniProtKB/TrEMBL),   A6HBL5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006240164   ⟸   XM_006240102
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000009180   ⟸   ENSRNOT00000009180
RefSeq Acc Id: XP_038968161   ⟸   XM_039112233
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038968164   ⟸   XM_039112236
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038968159   ⟸   XM_039112231
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038968160   ⟸   XM_039112232
- Peptide Label: isoform X3
RefSeq Acc Id: XP_063117981   ⟸   XM_063261911
- Peptide Label: isoform X5
RefSeq Acc Id: XP_063117980   ⟸   XM_063261910
- Peptide Label: isoform X2
RefSeq Acc Id: XP_063117983   ⟸   XM_063261913
- Peptide Label: isoform X6
RefSeq Acc Id: XP_063117982   ⟸   XM_063261912
- Peptide Label: isoform X6

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4A3D3-F1-model_v2 AlphaFold D4A3D3 1-301 view protein structure

Transcriptome

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

Promoters
RGD ID:13694601
Promoter ID:EPDNEW_R5125
Type:multiple initiation site
Name:RGD1304624_1
Description:similar to RIKEN cDNA 2700097O09
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_6.0675,996,201 - 75,996,261EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1304624 AgrOrtholog
BioCyc Gene G2FUF-37493 BioCyc
Ensembl Genes ENSRNOG00000006986 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000009180 ENTREZGENE
  ENSRNOT00000009180.5 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.150 UniProtKB/TrEMBL
InterPro Arsenite_MeTrfase-like UniProtKB/TrEMBL
  SAM-dependent_MTases-like UniProtKB/TrEMBL
KEGG Report rno:314128 UniProtKB/TrEMBL
NCBI Gene 314128 ENTREZGENE
PANTHER PTHR43675 UniProtKB/TrEMBL
  RIKEN CDNA 2700097O09 GENE UniProtKB/TrEMBL
PhenoGen 2700097O09Rikl PhenoGen
RatGTEx ENSRNOG00000006986 RatGTEx
Superfamily-SCOP SSF53335 UniProtKB/TrEMBL
UniProt A6HBL5 ENTREZGENE, UniProtKB/TrEMBL
  D4A3D3 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2023-09-19 2700097O09Rikl  RIKEN cDNA 2700097009 gene like  RGD1304624  similar to RIKEN cDNA 2700097O09  Symbol and Name Changed 1299863 APPROVED
2008-04-30 RGD1304624  similar to RIKEN cDNA 2700097O09   RGD1304624_predicted  similar to RIKEN cDNA 2700097O09 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-20 RGD1304624_predicted  similar to RIKEN cDNA 2700097O09 (predicted)  LOC314128_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC314128_predicted  similar to RIKEN cDNA 2700097O09 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL