4930402F06Rikl (RIKEN cDNA 4930402F06 gene like) - Rat Genome Database

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Gene: 4930402F06Rikl (RIKEN cDNA 4930402F06 gene like) Rattus norvegicus
Analyze
No known orthologs.
Symbol: 4930402F06Rikl
Name: RIKEN cDNA 4930402F06 gene like
RGD ID: 1560029
Description: Predicted to enable glycosyltransferase activity. Predicted to be involved in lipid glycosylation. Predicted to be located in membrane. Predicted to be active in Golgi apparatus and vesicle.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: ABO-family member 6; hypothetical protein LOC502618; LOC502618; uncharacterized protein LOC502618
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8339,110,670 - 39,126,943 (-)NCBIGRCr8
mRatBN7.2318,711,447 - 18,729,464 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl318,713,197 - 18,729,441 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx321,784,531 - 21,796,310 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0330,369,568 - 30,381,225 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0328,623,449 - 28,635,228 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0314,592,985 - 14,614,011 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl314,593,678 - 14,610,546 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0319,905,031 - 19,921,917 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4314,463,534 - 14,475,299 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera313,425,952 - 13,437,842 (-)NCBICelera
Cytogenetic Map3p11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
Golgi apparatus  (IBA)
membrane  (IEA)
vesicle  (IBA)

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. GOA pipeline RGD automated data pipeline
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Variants

.
Variants in 4930402F06Rikl
85 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:30
Count of miRNA genes:28
Interacting mature miRNAs:29
Transcripts:ENSRNOT00000060011
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
1358357Srcrtb1Stress Responsive Cort Basal QTL 16.360.002blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)3865816227494778Rat
6893355Bw101Body weight QTL 1010.40.38body mass (VT:0001259)body weight (CMO:0000012)31077870430357018Rat
11528620Bss113Bone structure and strength QTL 1139.752e-10femur morphology trait (VT:0000559)femoral neck width (CMO:0001695)31649064819241681Rat
634306Bp140Blood pressure QTL 1403.30.0013arterial blood pressure trait (VT:2000000)body weight (CMO:0000012)31737470335528639Rat
10401810Kidm53Kidney mass QTL 53kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)3822719447233430Rat
1298526Arunc3Aerobic running capacity QTL 32.2exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)3822719433703538Rat
8693641Alc30Alcohol consumption QTL 3020.739drinking behavior trait (VT:0001422)calculated ethanol drink intake rate (CMO:0001615)31043430624512004Rat
2298542Neuinf11Neuroinflammation QTL 113.9nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)31500542276927699Rat
1558657Cm43Cardiac mass QTL 436.63e-08heart mass (VT:0007028)heart wet weight (CMO:0000069)31077882330356773Rat
631568Bp92Blood pressure QTL 922.20.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3139874793Rat
6893363Bw105Body weight QTL 1052.60.0036body mass (VT:0001259)body weight (CMO:0000012)31077870430357018Rat
61468Bp15Blood pressure QTL 154.4blood pressure trait (VT:0000183)pulse pressure (CMO:0000292)3133278763Rat
631831Alc8Alcohol consumption QTL 82.7consumption behavior trait (VT:0002069)calculated ethanol drink intake rate (CMO:0001615)3133230976Rat
1558647Cm46Cardiac mass QTL 465.40.0000055heart mass (VT:0007028)heart wet weight (CMO:0000069)31077882330356773Rat
4889966Bss95Bone structure and strength QTL 954.4tibia area (VT:1000281)tibia-fibula cross-sectional area (CMO:0001718)3136847613Rat
12879852Cm93Cardiac mass QTL 930.001heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)31831145447233430Rat
1558654Bw56Body weight QTL 564.50.0000171body mass (VT:0001259)body weight (CMO:0000012)31077870430357018Rat
12879853Am5Aortic mass QTL 50.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)31831145447233430Rat
12879854Kidm63Kidney mass QTL 630.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)31831145447233430Rat
1558650Cm48Cardiac mass QTL 4840.0001heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)31077882330356773Rat
1358905Hrtrt17Heart rate QTL 175.90.000014heart pumping trait (VT:2000009)heart rate (CMO:0000002)31086191289878372Rat
12879849Bw180Body weight QTL 1800.037body mass (VT:0001259)body weight (CMO:0000012)31831145447233430Rat
70191BpQTLcluster4Blood pressure QTL cluster 43arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)31077870450302886Rat
12879850Cm91Cardiac mass QTL 910.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)31831145447233430Rat
731172Bp151Blood pressure QTL 1510.04arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)31831145447233430Rat
12879851Cm92Cardiac mass QTL 920.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)31831145447233430Rat
631545Bp85Blood pressure QTL 853.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3133278763Rat
1358885Bp251Blood pressure QTL 2513.8arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)314489145121056321Rat
2325840Bp345Blood pressure QTL 3450.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)31831145428441896Rat
631676Cm8Cardiac mass QTL 87.030.0001aorta mass (VT:0002845)aorta weight (CMO:0000076)31695470861954708Rat
631679Cm10Cardiac mass QTL 107.340.0001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)3131158234Rat
2290452Scl56Serum cholesterol level QTL 562.26blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)3191609953Rat
70203Gcr2Gastric cancer resistance QTL 22.6stomach morphology trait (VT:0000470)stomach tumor susceptibility score (CMO:0002043)3865816227494778Rat
70202Alc19Alcohol consumption QTL 192.5drinking behavior trait (VT:0001422)ethanol intake volume to total fluid intake volume ratio (CMO:0001591)3127494778Rat
2312664Scl62Serum cholesterol level QTL 620.05blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)3138710544Rat
1358888Bp264Blood pressure QTL 2644.43arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)314489145121056321Rat


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
nervous system
renal system
reproductive system
respiratory system
6 1 16 19 23 28 6 21 6 5 67 46 11 8 38 22

Sequence


Ensembl Acc Id: ENSRNOT00000060011   ⟹   ENSRNOP00000056762
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl318,713,197 - 18,729,441 (-)Ensembl
Rnor_6.0 Ensembl314,593,678 - 14,610,546 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000105021   ⟹   ENSRNOP00000094570
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl318,713,197 - 18,718,370 (-)Ensembl
RefSeq Acc Id: NM_001037366   ⟹   NP_001032443
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8339,110,670 - 39,126,943 (-)NCBI
mRatBN7.2318,713,189 - 18,729,464 (-)NCBI
Rnor_6.0314,594,412 - 14,606,176 (-)NCBI
Rnor_5.0319,905,031 - 19,921,917 (-)NCBI
RGSC_v3.4314,463,534 - 14,475,299 (-)RGD
Celera313,425,952 - 13,437,842 (-)RGD
Sequence:
RefSeq Acc Id: XM_008761772   ⟹   XP_008759994
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8339,110,675 - 39,122,529 (-)NCBI
mRatBN7.2318,711,447 - 18,725,049 (-)NCBI
Rnor_6.0314,592,985 - 14,601,151 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017591995   ⟹   XP_017447484
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8339,110,675 - 39,126,612 (-)NCBI
mRatBN7.2318,711,450 - 18,728,874 (-)NCBI
Rnor_6.0314,592,985 - 14,608,693 (-)NCBI
Sequence:
RefSeq Acc Id: XM_063284399   ⟹   XP_063140469
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8339,110,675 - 39,126,612 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001032443 (Get FASTA)   NCBI Sequence Viewer  
  XP_008759994 (Get FASTA)   NCBI Sequence Viewer  
  XP_017447484 (Get FASTA)   NCBI Sequence Viewer  
  XP_063140469 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAS92274 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000056762
  ENSRNOP00000056762.1
  ENSRNOP00000094570.1
RefSeq Acc Id: NP_001032443   ⟸   NM_001037366
- Peptide Label: precursor
- UniProtKB: A6JUF3 (UniProtKB/TrEMBL),   E9PTA3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008759994   ⟸   XM_008761772
- Peptide Label: isoform X2
- UniProtKB: A0A8I6AMF5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017447484   ⟸   XM_017591995
- Peptide Label: isoform X1
- UniProtKB: E9PTA3 (UniProtKB/TrEMBL),   A6JUF3 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000056762   ⟸   ENSRNOT00000060011
Ensembl Acc Id: ENSRNOP00000094570   ⟸   ENSRNOT00000105021
RefSeq Acc Id: XP_063140469   ⟸   XM_063284399
- Peptide Label: isoform X1
- UniProtKB: A6JUF3 (UniProtKB/TrEMBL),   E9PTA3 (UniProtKB/TrEMBL)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-E9PTA3-F1-model_v2 AlphaFold E9PTA3 1-332 view protein structure

Transcriptome

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

Promoters
RGD ID:13692019
Promoter ID:EPDNEW_R2544
Type:single initiation site
Name:LOC502618_1
Description:ABO-family member 6
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_6.0314,610,563 - 14,610,623EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1560029 AgrOrtholog
BioCyc Gene G2FUF-50045 BioCyc
Ensembl Genes ENSRNOG00000039210 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000060011 ENTREZGENE
  ENSRNOT00000060011.3 UniProtKB/TrEMBL
  ENSRNOT00000105021.1 UniProtKB/TrEMBL
Gene3D-CATH Spore Coat Polysaccharide Biosynthesis Protein SpsA, Chain A UniProtKB/TrEMBL
InterPro Glyco_trans_6 UniProtKB/TrEMBL
  Nucleotide-diphossugar_trans UniProtKB/TrEMBL
KEGG Report rno:502618 UniProtKB/TrEMBL
NCBI Gene 502618 ENTREZGENE
PANTHER Glyco_trans_6 UniProtKB/TrEMBL
  RIKEN CDNA 4930402F06 GENE UniProtKB/TrEMBL
Pfam Glyco_transf_6 UniProtKB/TrEMBL
PhenoGen 4930402F06Rikl PhenoGen
RatGTEx ENSRNOG00000039210 RatGTEx
Superfamily-SCOP SSF53448 UniProtKB/TrEMBL
UniProt A0A8I6AMF5 ENTREZGENE, UniProtKB/TrEMBL
  A6JUF3 ENTREZGENE, UniProtKB/TrEMBL
  E9PTA3 ENTREZGENE, UniProtKB/TrEMBL
  Q3L7L9_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2023-09-19 4930402F06Rikl  RIKEN cDNA 4930402F06 gene like  LOC502618  ABO-family member 6  Symbol and Name Changed 1299863 APPROVED
2006-02-09 LOC502618  ABO-family member 6      Symbol and Name status set to provisional 70820 PROVISIONAL