RGD1559536 (similar to vitellogenin-like 1 precursor) - Rat Genome Database

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Gene: RGD1559536 (similar to vitellogenin-like 1 precursor) Rattus norvegicus
Analyze
No known orthologs.
Symbol: RGD1559536
Name: similar to vitellogenin-like 1 precursor
RGD ID: 1559536
Description: INTERACTS WITH 17beta-estradiol 3-benzoate; bisphenol A
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC498855; vitellogenin-like 1
RGD Orthologs
Alliance Genes
More Info homologs ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81836,739,164 - 36,742,536 (-)NCBIGRCr8
mRatBN7.21836,488,275 - 36,491,647 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1836,488,275 - 36,491,647 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1836,592,298 - 36,595,670 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01837,310,642 - 37,314,014 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01836,687,547 - 36,690,919 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X42,951,237 - 42,954,609 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX42,951,237 - 42,954,609 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X43,256,003 - 43,259,375 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41837,786,872 - 37,789,714NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Cytogenetic Map18q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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

Genomics

Variants

.
Variants in RGD1559536
8 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:22
Count of miRNA genes:22
Interacting mature miRNAs:22
Transcripts:ENSRNOT00000060113
Prediction methods:Miranda, Pita, 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
9589153Insul31Insulin level QTL 317.150.05blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)18142547119Rat
2299160Iddm35Insulin dependent diabetes mellitus QTL 352.79blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)18420794160377792Rat
2312568Glom21Glomerulus QTL 2120.005kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)18518585840503530Rat
2293708Bss46Bone structure and strength QTL 468.80.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)181179151863636873Rat
1578661Bss20Bone structure and strength QTL 203.7femur morphology trait (VT:0000559)femoral neck cross-sectional area (CMO:0001697)181179151883218561Rat
1578667Bss21Bone structure and strength QTL 213.5femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)181179151883218561Rat
61375Bp41Blood pressure QTL 412.4blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)181194429941122201Rat
1331753Bp231Blood pressure QTL 2313.643arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)181194429952293055Rat
1358358Sradr6Stress Responsive Adrenal Weight QTL 62.49adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)181194429959330563Rat
6903359Bp355Blood pressure QTL 3553.6arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)181194454459796478Rat
2313082Bss85Bone structure and strength QTL 850.80.0001long bone metaphysis morphology trait (VT:0000133)tibia midshaft total cross-sectional area (CMO:0001715)181495133759951337Rat
1358193Emca2Estrogen-induced mammary cancer QTL 21.6mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)181800759963571040Rat
1600373Mamtr6Mammary tumor resistance QTL 6mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)181927890183218561Rat
1331741Bp232Blood pressure QTL 2323.59112arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)182137289383213037Rat
1641923Colcr8Colorectal carcinoma resistance QTL 83.10.0014intestine integrity trait (VT:0010554)poorly differentiated malignant colorectal tumor number (CMO:0002076)182206624252293055Rat
1331733Bp233Blood pressure QTL 2333.97196arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)182479697779788953Rat
2325839Bp348Blood pressure QTL 3480.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)182557098570570985Rat
12904673Cm127Cardiac mass QTL 1270.005heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)182654808246969551Rat
12904675Am19Aortic mass QTL 190.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)182654808246969551Rat
12904677Kidm72Kidney mass QTL 720.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)182654808246969551Rat
12904668Bw188Body weight QTL 1880.03body mass (VT:0001259)body weight (CMO:0000012)182654808246969551Rat
12904669Cm125Cardiac mass QTL 1250.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)182654808246969551Rat
12904670Cm126Cardiac mass QTL 1260.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)182654808246969551Rat
2301413Bp318Blood pressure QTL 3180.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)182654808246969551Rat
2293704Bss35Bone structure and strength QTL 354.590.0002femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)182896485373964853Rat
2300157Bmd66Bone mineral density QTL 6613.10.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)182896485373964853Rat
2300177Bmd65Bone mineral density QTL 6519.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)182896485373964853Rat
9589816Gluco68Glucose level QTL 687.250.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)182979296574792965Rat
8694378Bw157Body weight QTL 1573.590.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)182979296574792965Rat
9590318Scort22Serum corticosterone level QTL 227.640.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)182979296574792965Rat
1331754Bp230Blood pressure QTL 2304.61609arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)182979296574792965Rat
738005Anxrr11Anxiety related response QTL 113.4exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)183003981375039813Rat
61383Bp47Blood pressure QTL 4717.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)183127168160377755Rat
1331742Bp228Blood pressure QTL 2283.88752arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183135940859796643Rat
1331774Bp226Blood pressure QTL 2264.41065arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183135940859796643Rat
1331776Bp225Blood pressure QTL 2252.829arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)183135940859796643Rat
1331798Bp224Blood pressure QTL 2243.53873arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183135940859796643Rat
1331727Bp237Blood pressure QTL 2373.053arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183135940861698465Rat
61429Cia17Collagen induced arthritis QTL 174.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)183135940870263868Rat
2303120Mamtr8Mammary tumor resistance QTL 80.001mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)183135940883218561Rat
6903347Bp350Blood pressure QTL 3504.4arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183135953059796478Rat
631274Sprol1Serum protein level QTL 15.3blood total protein amount (VT:0005567)serum total protein level (CMO:0000661)183139332077209694Rat
631518Bw11Body weight QTL 112.8body mass (VT:0001259)body weight (CMO:0000012)183587072380870723Rat


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 hemolymphoid system integumental system musculoskeletal system reproductive system respiratory system appendage
High
Medium
Low 2 6 6 1 1 1 1
Below cutoff 9 2 2 1 1 2 2 1

Sequence


RefSeq Acc Id: ENSRNOT00000060113   ⟹   ENSRNOP00000056861
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1836,488,275 - 36,491,647 (-)Ensembl
Rnor_6.0 EnsemblX42,951,237 - 42,954,609 (+)Ensembl
RefSeq Acc Id: NM_001195484   ⟹   NP_001182413
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81836,739,164 - 36,742,536 (-)NCBI
mRatBN7.21836,488,275 - 36,491,647 (-)NCBI
Rnor_6.0X42,951,237 - 42,954,609 (+)NCBI
Rnor_5.0X43,256,003 - 43,259,375 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001182413 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL84755 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000056861
  ENSRNOP00000056861.2
RefSeq Acc Id: NP_001182413   ⟸   NM_001195484
- UniProtKB: D3ZIT9 (UniProtKB/TrEMBL),   A6KUC4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000056861   ⟸   ENSRNOT00000060113
Protein Domains
Kazal-like

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZIT9-F1-model_v2 AlphaFold D3ZIT9 1-85 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:1559536 AgrOrtholog
BioCyc Gene G2FUF-7666 BioCyc
Ensembl Genes ENSRNOG00000039250 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000060113 ENTREZGENE
  ENSRNOT00000060113.3 UniProtKB/TrEMBL
Gene3D-CATH 3.30.60.30 UniProtKB/TrEMBL
InterPro Kazal_dom_sf UniProtKB/TrEMBL
  Prot_inh_Kazal UniProtKB/TrEMBL
KEGG Report rno:498855 UniProtKB/TrEMBL
NCBI Gene 498855 ENTREZGENE
PANTHER SERINE PROTEASE INHIBITOR UniProtKB/TrEMBL
  SERINE PROTEASE INHIBITOR KAZAL-TYPE 11-RELATED UniProtKB/TrEMBL
Pfam Kazal_1 UniProtKB/TrEMBL
PhenoGen RGD1559536 PhenoGen
PROSITE KAZAL UniProtKB/TrEMBL
  KAZAL_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000039250 RatGTEx
SMART KAZAL UniProtKB/TrEMBL
Superfamily-SCOP SSF100895 UniProtKB/TrEMBL
UniProt A6KUC4 ENTREZGENE, UniProtKB/TrEMBL
  D3ZIT9 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 RGD1559536  similar to vitellogenin-like 1 precursor   RGD1559536_predicted  similar to vitellogenin-like 1 precursor (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1559536_predicted  similar to vitellogenin-like 1 precursor (predicted)  LOC498855  similar to vitellogenin-like 1 precursor  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC498855  similar to vitellogenin-like 1 precursor      Symbol and Name status set to provisional 70820 PROVISIONAL