2310002L09Rikl (RIKEN cDNA 2310002L09 like) - Rat Genome Database

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Gene: 2310002L09Rikl (RIKEN cDNA 2310002L09 like) Rattus norvegicus
Analyze
No known orthologs.
Symbol: 2310002L09Rikl (Ensembl: LOC298139)
Name: RIKEN cDNA 2310002L09 like (Ensembl:similar to RIKEN cDNA 2310003M01)
RGD ID: 1359584
Description: Predicted to be located in membrane.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: FERM domain-containing protein 3; hypothetical protein LOC298139; LOC298139; similar to RIKEN cDNA 2310003M01; uncharacterized protein LOC298139
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8592,738,969 - 92,752,417 (-)NCBIGRCr8
mRatBN7.2587,692,733 - 87,706,183 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl587,692,735 - 87,706,183 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx590,127,484 - 90,138,938 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0591,956,514 - 91,967,968 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0591,938,262 - 91,949,716 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0590,338,769 - 90,353,195 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl590,338,795 - 90,352,755 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0594,400,064 - 94,413,514 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4591,653,230 - 91,664,680 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1591,658,344 - 91,669,793 (-)NCBI
Celera586,418,514 - 86,429,964 (-)NCBICelera
Cytogenetic Map5q31NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
membrane  (IEA)

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. GOA pipeline RGD automated data pipeline
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.

Genomics

Variants

.
Variants in 2310002L09Rikl
59 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:152
Count of miRNA genes:127
Interacting mature miRNAs:136
Transcripts:ENSRNOT00000058882
Prediction methods:Microtar, 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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1331756Rf34Renal function QTL 344.16275kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)5190450412Rat
70212Niddm25Non-insulin dependent diabetes mellitus QTL 253.54blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)51131345958Rat
1576314Eutr1Estrogen induced uterine response QTL 1uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)52138965166875058Rat
7394712Emca13Estrogen-induced mammary cancer QTL 13mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)5982326699753708Rat
634305Mamtr1Mammary tumor resistance QTL 10.0001mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)512789751113558310Rat
2290448Scl54Serum cholesterol level QTL 542.93blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)531663789131345958Rat
1576317Eutr2Estrogen induced uterine response QTL 20.01uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)534730116104251008Rat
2316959Gluco59Glucose level QTL 594.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)534944474113558310Rat
1641912Alcrsp18Alcohol response QTL 18response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)535189153141643988Rat
1549845Scl44Serum cholesterol level QTL 446blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)540128307148607290Rat
1331801Rf33Renal function QTL 334.149kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)543726656129132602Rat
1578766Tcas11Tongue tumor susceptibility QTL 114.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)546711509161317411Rat
1300115Hrtrt7Heart rate QTL 72.76heart pumping trait (VT:2000009)heart rate (CMO:0000002)54786906290099692Rat
9589025Epfw7Epididymal fat weight QTL 720.660.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)54946360094463600Rat
7411561Bw134Body weight QTL 134240.001body mass (VT:0001259)body weight gain (CMO:0000420)54946360094463600Rat
1576312Emca8Estrogen-induced mammary cancer QTL 84.1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)550328551141643988Rat
2303615Vencon7Ventilatory control QTL 70.001respiration trait (VT:0001943)respiration rate (CMO:0000289)55098389595983895Rat
2303574Gluco42Glucose level QTL 422blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)55349671998496719Rat
61359EaexExperimental allergic encephalomyelitis QTL x3nervous system integrity trait (VT:0010566)post-insult time to onset of experimental autoimmune encephalomyelitis (CMO:0001422)555715622100715622Rat
70189Mcs5Mammary carcinoma susceptibility QTL 510.51mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)555805606132207589Rat
1358895Bp254Blood pressure QTL 2543.60.0003arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)558829236128034027Rat
61426Scl2Serum cholesterol level QTL 27.30.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)559793399143070159Rat
2316954Rf57Renal function QTL 570kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)55979352890450144Rat
2316957Pur21Proteinuria QTL 216.2urine protein amount (VT:0005160)urine protein level (CMO:0000591)559793528113558156Rat
61386Bp49Blood pressure QTL 4916.6cerebrum integrity trait (VT:0010549)brain infarction volume (CMO:0001013)56029343498603051Rat
61393Bp7Blood pressure QTL 74.50.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)560293434161481680Rat
2290005Mcs24Mammary carcinoma susceptibility QTL 24mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)564719390109719390Rat
2306971Anxrr21Anxiety related response QTL 219.47fear/anxiety-related behavior trait (VT:1000241)number of entries into a discrete space in an experimental apparatus (CMO:0000960)566174080124160948Rat
2312671Scl64Serum cholesterol level QTL 640.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)568984307104251008Rat
61380Edpm5Estrogen-dependent pituitary mass QTL 54.50.92pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)568984307104251008Rat
1357396Bw44Body weight QTL 444.19body mass (VT:0001259)body weight (CMO:0000012)568984307104251008Rat
1357402Bw46Body weight QTL 464.47body mass (VT:0001259)body mass index (BMI) (CMO:0000105)568984307104251008Rat
2302381Bw84Body weight QTL 844.47body mass (VT:0001259)body mass index (BMI) (CMO:0000105)568984307104251008Rat
1354598Srn6Serum renin concentration QTL 63.8blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)569540295151018848Rat
1298070Scl18Serum cholesterol level QTL 183.7blood LDL cholesterol amount (VT:0000181)calculated plasma low density lipoprotein cholesterol level (CMO:0001245)579584860124584860Rat
1598846Bp293Blood pressure QTL 2933.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)579584860124584860Rat
1598859Cm66Cardiac mass QTL 662heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)579584860124584860Rat
1302790Scl20Serum cholesterol level QTL 206.40.0001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)582394392166664054Rat
1331782Rf36Renal function QTL 363.296kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)58384059897059958Rat
1298086Bp156Blood pressure QTL 156arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)584132602129132602Rat
7411601Foco12Food consumption QTL 1219.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)587468046132468046Rat
7411564Bw135Body weight QTL 1350.001body mass (VT:0001259)body weight gain (CMO:0000420)587468046132468046Rat
7411582Foco3Food consumption QTL 37.50.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)587468046132468046Rat


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

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 16 8 11 8
Low 11 2 7
Below cutoff 6 10 5 5 5 6 3 17 1

Sequence


RefSeq Acc Id: ENSRNOT00000058882   ⟹   ENSRNOP00000055669
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl587,694,680 - 87,706,128 (-)Ensembl
Rnor_6.0 Ensembl590,338,824 - 90,350,272 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000077864   ⟹   ENSRNOP00000074470
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl587,695,626 - 87,706,183 (-)Ensembl
Rnor_6.0 Ensembl590,338,795 - 90,352,755 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000117577   ⟹   ENSRNOP00000087543
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl587,692,735 - 87,706,183 (-)Ensembl
RefSeq Acc Id: NM_001013930   ⟹   NP_001013952
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8592,740,912 - 92,752,362 (-)NCBI
mRatBN7.2587,694,678 - 87,706,128 (-)NCBI
Rnor_6.0590,338,824 - 90,350,274 (+)NCBI
Rnor_5.0594,400,064 - 94,413,514 (+)NCBI
RGSC_v3.4591,653,230 - 91,664,680 (-)RGD
Celera586,418,514 - 86,429,964 (-)RGD
Sequence:
RefSeq Acc Id: XM_006238294   ⟹   XP_006238356
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8592,738,969 - 92,752,417 (-)NCBI
mRatBN7.2587,692,733 - 87,706,183 (-)NCBI
Rnor_6.0590,338,769 - 90,353,195 (+)NCBI
Rnor_5.0594,400,064 - 94,413,514 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001013952 (Get FASTA)   NCBI Sequence Viewer  
  XP_006238356 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH83698 (Get FASTA)   NCBI Sequence Viewer  
  EDM10493 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000055669
  ENSRNOP00000055669.3
  ENSRNOP00000074470.2
  ENSRNOP00000087543
  ENSRNOP00000087543.1
RefSeq Acc Id: NP_001013952   ⟸   NM_001013930
- UniProtKB: Q5XII3 (UniProtKB/TrEMBL),   D3ZCP2 (UniProtKB/TrEMBL),   A0A0G2K848 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006238356   ⟸   XM_006238294
- Peptide Label: isoform X1
- UniProtKB: A0A0G2K848 (UniProtKB/TrEMBL),   A0A8I6A7Z9 (UniProtKB/TrEMBL),   A6J814 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000074470   ⟸   ENSRNOT00000077864
RefSeq Acc Id: ENSRNOP00000055669   ⟸   ENSRNOT00000058882
RefSeq Acc Id: ENSRNOP00000087543   ⟸   ENSRNOT00000117577

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q5XII3-F1-model_v2 AlphaFold Q5XII3 1-217 view protein structure

Transcriptome

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

Promoters
RGD ID:13693815
Promoter ID:EPDNEW_R4336
Type:initiation region
Name:LOC298139_1
Description:similar to RIKEN cDNA 2310003M01
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_6.0590,338,798 - 90,338,858EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1359584 AgrOrtholog
BioCyc Gene G2FUF-40968 BioCyc
Ensembl Genes ENSRNOG00000045733 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000058882 ENTREZGENE
  ENSRNOT00000058882.5 UniProtKB/TrEMBL
  ENSRNOT00000077864.2 UniProtKB/TrEMBL
  ENSRNOT00000117577.1 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7189881 IMAGE-MGC_LOAD
KEGG Report rno:298139 UniProtKB/TrEMBL
MGC_CLONE MGC:94572 IMAGE-MGC_LOAD
NCBI Gene 298139 ENTREZGENE
PhenoGen 2310002L09Rikl PhenoGen
RatGTEx ENSRNOG00000045733 RatGTEx
UniProt A0A0G2K848 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6A7Z9 ENTREZGENE, UniProtKB/TrEMBL
  A6J814 ENTREZGENE, UniProtKB/TrEMBL
  D3ZCP2 ENTREZGENE
  Q5XII3 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary D3ZCP2 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2023-09-19 2310002L09Rikl  RIKEN cDNA 2310002L09 like  LOC298139  similar to RIKEN cDNA 2310003M01  Symbol and Name Changed 1299863 APPROVED
2005-07-29 LOC298139  similar to RIKEN cDNA 2310003M01      Symbol and Name status set to provisional 70820 PROVISIONAL