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
Name: RIKEN cDNA 2310002L09 like
RGD ID: 1359584
Description: Predicted to be located in membrane.
Type: protein-coding
RefSeq Status: VALIDATED
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: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8592,738,969 - 92,752,417 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl592,738,969 - 92,752,417 (-)EnsemblGRCr8
mRatBN7.2587,692,733 - 87,706,183 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl587,692,735 - 87,706,183 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx590,127,484 - 90,138,938 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0591,956,514 - 91,967,968 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0591,938,262 - 91,949,716 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0590,338,769 - 90,353,195 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl590,338,795 - 90,352,755 (+)Ensemblrn6Rnor6.0
Rnor_5.0594,400,064 - 94,413,514 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4591,653,230 - 91,664,680 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera586,418,514 - 86,429,964 (-)NCBICelera
RGSC_v3.1591,658,344 - 91,669,793 (-)NCBI
Cytogenetic Map5q31NCBI
JBrowse:




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
64 total Variants
miRNA Target Status (No longer updated)

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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300115Hrtrt7Heart rate QTL 72.76heart pumping trait (VT:2000009)heart rate (CMO:0000002)55266537294894052Rat
1357396Bw44Body weight QTL 444.19body mass (VT:0001259)body weight (CMO:0000012)573779642118779642Rat
1549845Scl44Serum cholesterol level QTL 446blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)544924861153890773Rat
61380Edpm5Estrogen-dependent pituitary mass QTL 54.50.92pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)573779642103472210Rat
70212Niddm25Non-insulin dependent diabetes mellitus QTL 253.54blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)538207390136631402Rat
1298070Scl18Serum cholesterol level QTL 183.7blood LDL cholesterol amount (VT:0000181)calculated plasma low density lipoprotein cholesterol level (CMO:0001245)584630798129630798Rat
61386Bp49Blood pressure QTL 4916.6cerebrum integrity trait (VT:0010549)brain infarction volume (CMO:0001013)565089051103648916Rat
1331801Rf33Renal function QTL 334.149kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)548523123134369373Rat
2302381Bw84Body weight QTL 844.47body mass (VT:0001259)body mass index (BMI) (CMO:0000105)573779642118779642Rat
1357402Bw46Body weight QTL 464.47body mass (VT:0001259)body mass index (BMI) (CMO:0000105)573779642118779642Rat
7411582Foco3Food consumption QTL 37.50.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)592583776137583776Rat
61393Bp7Blood pressure QTL 74.50.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)565089051166764498Rat
1331782Rf36Renal function QTL 363.296kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)539019942102105896Rat
1598859Cm66Cardiac mass QTL 662heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)584630798129630798Rat
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)551657967166600247Rat
7411564Bw135Body weight QTL 1350.001body mass (VT:0001259)body weight gain (CMO:0000420)592583776137583776Rat
1576312Emca8Estrogen-induced mammary cancer QTL 84.1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)555124766172190305Rat
7411601Foco12Food consumption QTL 1219.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)592583776137583776Rat
7394708Emca11Estrogen-induced mammary cancer QTL 11mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)573176602118176602Rat
1598846Bp293Blood pressure QTL 2933.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)584630798129630798Rat
1578673Bmd13Bone mineral density QTL 134.9femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)569474415114474415Rat
70189Mcs5Mammary carcinoma susceptibility QTL 510.51mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)560601597137492949Rat
61359EaexExperimental allergic encephalomyelitis QTL x3nervous system integrity trait (VT:0010566)post-insult time to onset of experimental autoimmune encephalomyelitis (CMO:0001422)560511627105511627Rat
2290448Scl54Serum cholesterol level QTL 542.93blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)536460764136631402Rat
61426Scl2Serum cholesterol level QTL 27.30.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)564589016109589016Rat
1354598Srn6Serum renin concentration QTL 63.8blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)574335621156302135Rat
1600362Mcs19Mammary carcinoma susceptibility QTL 192.5mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)582032155127032155Rat
1298086Bp156Blood pressure QTL 156arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)589369373134369373Rat
2290005Mcs24Mammary carcinoma susceptibility QTL 24mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)569835120114835120Rat
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)570969494136328156Rat
2316954Rf57Renal function QTL 570kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)56458901693503770Rat
2316959Gluco59Glucose level QTL 594.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)556546393101546393Rat
2312671Scl64Serum cholesterol level QTL 640.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)573779642118779642Rat


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
2 12 51 31 21 25 7 6 7 6 101 79 10 13 5 41 18 2 2

Sequence


Ensembl Acc Id: ENSRNOT00000058882   ⟹   ENSRNOP00000055669
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl592,740,914 - 92,752,362 (-)Ensembl
mRatBN7.2 Ensembl587,694,680 - 87,706,128 (-)Ensembl
Rnor_6.0 Ensembl590,338,824 - 90,350,272 (+)Ensembl
Ensembl 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
Ensembl Acc Id: ENSRNOT00000117577   ⟹   ENSRNOP00000087543
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl592,738,969 - 92,752,417 (-)Ensembl
mRatBN7.2 Ensembl587,692,735 - 87,706,183 (-)Ensembl
RefSeq Acc Id: NM_001013930   ⟹   NP_001013952
RefSeq Status: VALIDATED
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:
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
- Sequence:
Ensembl Acc Id: ENSRNOP00000074470   ⟸   ENSRNOT00000077864
Ensembl Acc Id: ENSRNOP00000055669   ⟸   ENSRNOT00000058882
Ensembl 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
  ENSRNOT00000058882.6 UniProtKB/TrEMBL
  ENSRNOT00000117577 ENTREZGENE
  ENSRNOT00000117577.2 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
  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