Lyar (Ly1 antibody reactive) - Rat Genome Database

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Gene: Lyar (Ly1 antibody reactive) Rattus norvegicus
Analyze
Symbol: Lyar
Name: Ly1 antibody reactive
RGD ID: 1305352
Description: Predicted to enable several functions, including DNA-binding transcription factor binding activity; identical protein binding activity; and transcription regulator inhibitor activity. Predicted to be involved in several processes, including erythrocyte development; positive regulation of phagocytosis; and regulation of DNA-templated transcription. Predicted to be located in nucleoplasm and photoreceptor outer segment. Predicted to be active in nucleolus. Orthologous to human LYAR (Ly1 antibody reactive); INTERACTS WITH (+)-schisandrin B; 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: cell growth-regulating nucleolar protein; LOC289707; Ly1 antibody reactive clone; Ly1 antibody reactive homolog; Ly1 antibody reactive homolog (mouse)
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81476,789,193 - 76,802,973 (-)NCBIGRCr8
mRatBN7.21472,576,878 - 72,590,854 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1472,576,879 - 72,590,612 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1477,018,568 - 77,032,136 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01478,259,442 - 78,273,010 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01474,699,518 - 74,713,086 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01477,308,211 - 77,321,931 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1477,308,204 - 77,321,977 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01477,290,073 - 77,303,793 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41477,859,637 - 77,873,205 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11477,862,030 - 77,875,596 (-)NCBI
Celera1471,527,386 - 71,540,966 (-)NCBICelera
Cytogenetic Map14q21NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
LyarRatEllis-Van Creveld syndrome  ISOLYAR (Homo sapiens)8554872ClinVar Annotator: match by term: Ellis-van Creveld syndromeClinVarPMID:17024374 more ...

1 to 20 of 107 rows

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
LyarRat(+)-schisandrin B multiple interactionsEXP 6480464schizandrin B inhibits the reaction [Carbon Tetrachloride results in increased expression of LYAR mRNA]CTDPMID:31150632
LyarRat1,2-dimethylhydrazine increases expressionISOLyar (Mus musculus)64804641 and 2-Dimethylhydrazine results in increased expression of LYAR mRNACTDPMID:22206623
LyarRat17alpha-ethynylestradiol multiple interactionsISOLyar (Mus musculus)6480464[Tetrachlorodibenzodioxin co-treated with Ethinyl Estradiol] results in increased expression of LYAR mRNACTDPMID:17942748
LyarRat17alpha-ethynylestradiol increases expressionISOLyar (Mus musculus)6480464Ethinyl Estradiol results in increased expression of LYAR mRNACTDPMID:17942748
LyarRat17beta-estradiol increases expressionISOLYAR (Homo sapiens)6480464Estradiol results in increased expression of LYAR mRNACTDPMID:23019147 more ...
LyarRat17beta-estradiol decreases expressionEXP 6480464Estradiol results in decreased expression of LYAR mRNACTDPMID:32145629
LyarRat2,3,7,8-tetrachlorodibenzodioxine multiple interactionsISOLyar (Mus musculus)6480464[Tetrachlorodibenzodioxin co-treated with Ethinyl Estradiol] results in increased expression of LYAR mRNACTDPMID:17942748
LyarRat2,3,7,8-tetrachlorodibenzodioxine increases expressionEXP 6480464Tetrachlorodibenzodioxin results in increased expression of LYAR mRNACTDPMID:34747641
LyarRat2,3,7,8-tetrachlorodibenzodioxine affects expressionISOLyar (Mus musculus)6480464Tetrachlorodibenzodioxin affects the expression of LYAR mRNACTDPMID:21570461
LyarRat2,3,7,8-tetrachlorodibenzodioxine decreases expressionISOLYAR (Homo sapiens)6480464Tetrachlorodibenzodioxin results in decreased expression of LYAR mRNACTDPMID:20106945 and PMID:21632981
LyarRat2,3,7,8-tetrachlorodibenzodioxine increases expressionISOLyar (Mus musculus)6480464Tetrachlorodibenzodioxin results in increased expression of LYAR mRNACTDPMID:17942748 and PMID:19465110
LyarRat2,4-dinitrotoluene affects expressionEXP 64804642 and 4-dinitrotoluene affects the expression of LYAR mRNACTDPMID:21346803
LyarRat2,6-dinitrotoluene affects expressionEXP 64804642 and 6-dinitrotoluene affects the expression of LYAR mRNACTDPMID:21346803
LyarRat2-methylcholine affects expressionISOLYAR (Homo sapiens)6480464beta-methylcholine affects the expression of LYAR mRNACTDPMID:21179406
LyarRat3,3',4,4',5-pentachlorobiphenyl increases expressionEXP 64804643 more ...CTDPMID:23196670
LyarRat4,4'-diaminodiphenylmethane decreases expressionISOLyar (Mus musculus)64804644 and 4'-diaminodiphenylmethane results in decreased expression of LYAR mRNACTDPMID:18648102
LyarRat4,4'-sulfonyldiphenol increases expressionISOLyar (Mus musculus)6480464bisphenol S results in increased expression of LYAR mRNACTDPMID:39298647
LyarRat4,4'-sulfonyldiphenol increases expressionISOLYAR (Homo sapiens)6480464bisphenol S results in increased expression of LYAR proteinCTDPMID:31945527
LyarRat6-propyl-2-thiouracil increases expressionEXP 6480464Propylthiouracil results in increased expression of LYAR mRNACTDPMID:30047161
LyarRatacrolein multiple interactionsISOLYAR (Homo sapiens)6480464[Acrolein co-treated with methacrylaldehyde co-treated with Ozone] results in increased oxidation of LYAR mRNACTDPMID:32845096

1 to 20 of 107 rows

Biological Process
1 to 20 of 22 rows

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
LyarRaterythrocyte development involved_inISOLYAR (Homo sapiens)1624291 PMID:25092918RGDPMID:25092918
LyarRaterythrocyte development involved_inIEAUniProtKB:Q9NX58 and ensembl:ENSP000003459171600115GO_REF:0000107EnsemblGO_REF:0000107
LyarRaterythrocyte development involved_inISSUniProtKB:Q9NX581600115GO_REF:0000024UniProtGO_REF:0000024
LyarRatimmune system process involved_inIEAUniProtKB-KW:KW-03911600115GO_REF:0000043UniProtGO_REF:0000043
LyarRatinnate immune response involved_inIEAUniProtKB-KW:KW-03991600115GO_REF:0000043UniProtGO_REF:0000043
LyarRatnegative regulation of innate immune response involved_inIEAUniProtKB:Q9NX58 and ensembl:ENSP000003459171600115GO_REF:0000107EnsemblGO_REF:0000107
LyarRatnegative regulation of innate immune response involved_inISOLYAR (Homo sapiens)1624291 PMID:31413131RGDPMID:31413131
LyarRatnegative regulation of transcription by RNA polymerase II involved_inISOLyar (Mus musculus)1624291 PMID:25092918RGDPMID:25092918
LyarRatnegative regulation of transcription by RNA polymerase II involved_inIBAMGI:107470 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
LyarRatnegative regulation of transcription by RNA polymerase II involved_inISOLYAR (Homo sapiens)1624291 PMID:25092918 and PMID:31413131RGDPMID:25092918 and PMID:31413131
LyarRatnegative regulation of transcription by RNA polymerase II involved_inISSUniProtKB:Q9NX581600115GO_REF:0000024UniProtGO_REF:0000024
LyarRatnegative regulation of transcription by RNA polymerase II involved_inIEAUniProtKB:Q08288 and ensembl:ENSMUSP000000847911600115GO_REF:0000107EnsemblGO_REF:0000107
LyarRatnegative regulation of transcription by RNA polymerase II involved_inIEAUniProtKB:Q9NX58 and ensembl:ENSP000003459171600115GO_REF:0000107EnsemblGO_REF:0000107
LyarRatpositive regulation of phagocytosis involved_inISOLyar (Mus musculus)1624291 PMID:25735755RGDPMID:25735755
LyarRatpositive regulation of phagocytosis involved_inISSUniProtKB:Q082881600115GO_REF:0000024UniProtGO_REF:0000024
LyarRatpositive regulation of phagocytosis involved_inIEAUniProtKB:Q08288 and ensembl:ENSMUSP000000847911600115GO_REF:0000107EnsemblGO_REF:0000107
LyarRatpositive regulation of transcription by RNA polymerase I involved_inISOLYAR (Homo sapiens)1624291 PMID:31504794RGDPMID:31504794
LyarRatpositive regulation of transcription by RNA polymerase I involved_inIEAUniProtKB:Q9NX58 and ensembl:ENSP000003459171600115GO_REF:0000107EnsemblGO_REF:0000107
LyarRatrRNA processing involved_inIEAUniProtKB:Q9NX58 and ensembl:ENSP000003459171600115GO_REF:0000107EnsemblGO_REF:0000107
LyarRatrRNA processing involved_inIBAPANTHER:PTN000318364 and UniProtKB:Q9NX581600115GO_REF:0000033GO_CentralGO_REF:0000033
1 to 20 of 22 rows

Cellular Component
1 to 20 of 21 rows

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
LyarRatcell projection located_inIEAUniProtKB-KW:KW-09661600115GO_REF:0000043UniProtGO_REF:0000043
LyarRatcytoplasm located_inIEAUniProtKB-SubCell:SL-00861600115GO_REF:0000044UniProtGO_REF:0000044
LyarRatcytoplasm located_inIEAUniProtKB-KW:KW-09631600115GO_REF:0000043UniProtGO_REF:0000043
LyarRatnucleolus located_inIEAUniProtKB-SubCell:SL-01881600115GO_REF:0000044UniProtGO_REF:0000044
LyarRatnucleolus located_inISOLyar (Mus musculus)1624291 PMID:8491376RGDPMID:8491376
LyarRatnucleolus is_active_inIBAMGI:107470 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
LyarRatnucleolus located_inISOLYAR (Homo sapiens)1624291 PMID:24495227 more ...RGDGO_REF:0000052 more ...
LyarRatnucleolus located_inISSUniProtKB:Q9NX581600115GO_REF:0000024UniProtGO_REF:0000024
LyarRatnucleolus located_inIEAUniProtKB:Q9NX58 and ensembl:ENSP000003459171600115GO_REF:0000107EnsemblGO_REF:0000107
LyarRatnucleolus located_inIEAUniProtKB:Q08288 and ensembl:ENSMUSP000000847911600115GO_REF:0000107EnsemblGO_REF:0000107
LyarRatnucleoplasm located_inIEAUniProtKB:Q9NX58 and ensembl:ENSP000003459171600115GO_REF:0000107EnsemblGO_REF:0000107
LyarRatnucleoplasm located_inISOLYAR (Homo sapiens)1624291 RGDGO_REF:0000052
LyarRatnucleus located_inIEAUniProtKB-SubCell:SL-01911600115GO_REF:0000044UniProtGO_REF:0000044
LyarRatnucleus located_inIEAUniProtKB:Q9NX58 and ensembl:ENSP000003459171600115GO_REF:0000107EnsemblGO_REF:0000107
LyarRatnucleus located_inIEAUniProtKB-KW:KW-05391600115GO_REF:0000043UniProtGO_REF:0000043
LyarRatnucleus located_inISOLYAR (Homo sapiens)1624291 PMID:22720776 and PMID:25092918RGDPMID:22720776 and PMID:25092918
LyarRatnucleus located_inISSUniProtKB:Q9NX581600115GO_REF:0000024UniProtGO_REF:0000024
LyarRatphotoreceptor outer segment located_inISSUniProtKB:Q082881600115GO_REF:0000024UniProtGO_REF:0000024
LyarRatphotoreceptor outer segment located_inISOLyar (Mus musculus)1624291 PMID:25735755RGDPMID:25735755
LyarRatphotoreceptor outer segment located_inIEAUniProtKB-SubCell:SL-04581600115GO_REF:0000044UniProtGO_REF:0000044
1 to 20 of 21 rows

Molecular Function
1 to 14 of 14 rows

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
LyarRatDNA binding enablesISSUniProtKB:Q9NX581600115GO_REF:0000024UniProtGO_REF:0000024
LyarRatDNA binding enablesIBAPANTHER:PTN000318364 and UniProtKB:Q9NX581600115GO_REF:0000033GO_CentralGO_REF:0000033
LyarRatDNA binding enablesIEAInterPro:IPR0399991600115GO_REF:0000002InterProGO_REF:0000002
LyarRatDNA binding enablesISOLYAR (Homo sapiens)1624291 PMID:25092918RGDPMID:25092918
LyarRatDNA binding enablesIEAUniProtKB:Q9NX58 and ensembl:ENSP000003459171600115GO_REF:0000107EnsemblGO_REF:0000107
LyarRatDNA-binding transcription factor binding enablesIEAUniProtKB:Q9NX58 and ensembl:ENSP000003459171600115GO_REF:0000107EnsemblGO_REF:0000107
LyarRatDNA-binding transcription factor binding enablesISOLYAR (Homo sapiens)1624291UniProtKB:Q14653 and PMID:31413131RGDPMID:31413131
LyarRatidentical protein binding enablesIEAUniProtKB:Q9NX58 and ensembl:ENSP000003459171600115GO_REF:0000107EnsemblGO_REF:0000107
LyarRatidentical protein binding enablesISOLYAR (Homo sapiens)1624291UniProtKB:Q9NX58 and PMID:32296183RGDPMID:32296183
LyarRatmetal ion binding enablesIEAUniProtKB-KW:KW-04791600115GO_REF:0000043UniProtGO_REF:0000043
LyarRatprotein binding enablesISOLYAR (Homo sapiens)1624291UniProtKB:A0A142I5B9 more ...RGDPMID:21516116 more ...
LyarRattranscription regulator inhibitor activity enablesIEAUniProtKB:Q9NX58 and ensembl:ENSP000003459171600115GO_REF:0000107EnsemblGO_REF:0000107
LyarRattranscription regulator inhibitor activity enablesISOLYAR (Homo sapiens)1624291 PMID:31413131RGDPMID:31413131
LyarRatzinc ion binding enablesIEAUniProtKB-KW:KW-08631600115GO_REF:0000043UniProtGO_REF:0000043
1 to 14 of 14 rows


#
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
PMID:8491376   PMID:12477932   PMID:15489334   PMID:22658674   PMID:22681889   PMID:22720776   PMID:24495227   PMID:25092918   PMID:25735755   PMID:35352799  



Lyar
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81476,789,193 - 76,802,973 (-)NCBIGRCr8
mRatBN7.21472,576,878 - 72,590,854 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1472,576,879 - 72,590,612 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1477,018,568 - 77,032,136 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01478,259,442 - 78,273,010 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01474,699,518 - 74,713,086 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01477,308,211 - 77,321,931 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1477,308,204 - 77,321,977 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01477,290,073 - 77,303,793 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41477,859,637 - 77,873,205 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11477,862,030 - 77,875,596 (-)NCBI
Celera1471,527,386 - 71,540,966 (-)NCBICelera
Cytogenetic Map14q21NCBI
LYAR
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3844,267,701 - 4,290,154 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl44,267,701 - 4,290,154 (-)EnsemblGRCh38hg38GRCh38
GRCh3744,269,428 - 4,291,881 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3644,320,337 - 4,342,744 (-)NCBINCBI36Build 36hg18NCBI36
Celera44,167,051 - 4,189,521 (-)NCBICelera
Cytogenetic Map4p16.3NCBI
HuRef44,205,115 - 4,227,579 (-)NCBIHuRef
CHM1_144,267,309 - 4,289,782 (-)NCBICHM1_1
T2T-CHM13v2.044,237,159 - 4,259,618 (-)NCBIT2T-CHM13v2.0
Lyar
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39538,377,815 - 38,391,650 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl538,377,814 - 38,391,650 (+)EnsemblGRCm39 Ensembl
GRCm38538,220,471 - 38,234,306 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl538,220,470 - 38,234,306 (+)EnsemblGRCm38mm10GRCm38
MGSCv37538,611,721 - 38,625,545 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36538,508,799 - 38,522,546 (+)NCBIMGSCv36mm8
Celera535,670,252 - 35,684,076 (+)NCBICelera
Cytogenetic Map5B3NCBI
cM Map520.29NCBI
Lyar
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555145,358,843 - 5,376,112 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555145,358,843 - 5,375,990 (+)NCBIChiLan1.0ChiLan1.0
LYAR
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v234,534,513 - 4,557,030 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan144,467,357 - 4,489,984 (-)NCBINHGRI_mPanPan1
PanPan1.144,348,263 - 4,370,716 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl44,348,263 - 4,364,347 (-)Ensemblpanpan1.1panPan2
LYAR
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1369,710,735 - 69,724,175 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl369,710,735 - 69,724,177 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha372,262,732 - 72,281,663 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0370,467,687 - 70,486,622 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl370,467,692 - 70,486,574 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1369,741,785 - 69,760,718 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0369,906,935 - 69,925,842 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0370,288,339 - 70,307,278 (-)NCBIUU_Cfam_GSD_1.0
Lyar
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440528563,232,715 - 63,257,046 (-)NCBIHiC_Itri_2
SpeTri2.0NW_00493647716,934,401 - 16,958,722 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LYAR
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl86,081,368 - 6,099,857 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.186,081,332 - 6,099,861 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.285,776,295 - 5,794,805 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LYAR
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12740,410,849 - 40,433,942 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604787,211,025 - 87,233,986 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Lyar
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462475521,434,144 - 21,450,124 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

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Variants in Lyar
38 total Variants

Predicted Target Of
Summary Value
Count of predictions:15
Count of miRNA genes:12
Interacting mature miRNAs:14
Transcripts:ENSRNOT00000007154
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.


1 to 10 of 19 rows
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Name
LOD
P Value
Trait
Sub Trait
Chr
Start
Stop
Species
2313089Bss81Bone structure and strength QTL 813.40.0001body length (VT:0001256)body length, nose to rump (CMO:0000079)143766971982669719Rat
9590294Uminl4Urine mineral level QTL 45.660.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)1455624247100624247Rat
2300197Scl59Serum cholesterol level QTL 59blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1455147478100147478Rat
70214Niddm28Non-insulin dependent diabetes mellitus QTL 284.06blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)143999825175582726Rat
70153Bp59Blood pressure QTL 593.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)146875779683368335Rat
70187Pancm5Pancreatic morphology QTL 516.7pancreas mass (VT:0010144)pancreas weight to body weight ratio (CMO:0000630)143032009280829842Rat
631523Pia13Pristane induced arthritis QTL 133.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)144079346098037301Rat
1582259Gluco23Glucose level QTL 233.10.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1470053989104886043Rat
2313100Bss82Bone structure and strength QTL 8230.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)143766971982669719Rat
634328Hc5Hypercalciuria QTL 52.3urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1458184885103184885Rat

1 to 10 of 19 rows
BE111765  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21472,576,960 - 72,577,115 (+)MAPPERmRatBN7.2
Rnor_6.01477,308,294 - 77,308,448NCBIRnor6.0
Rnor_5.01477,290,156 - 77,290,310UniSTSRnor5.0
RGSC_v3.41477,859,716 - 77,859,870UniSTSRGSC3.4
Celera1471,527,465 - 71,527,619UniSTS
Cytogenetic Map14q21UniSTS




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
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31



Ensembl Acc Id: ENSRNOT00000007154   ⟹   ENSRNOP00000007154
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1472,576,879 - 72,590,612 (-)Ensembl
Rnor_6.0 Ensembl1477,308,218 - 77,321,783 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000084093   ⟹   ENSRNOP00000073585
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1472,577,497 - 72,590,612 (-)Ensembl
Rnor_6.0 Ensembl1477,308,204 - 77,321,977 (-)Ensembl
RefSeq Acc Id: NM_001011911   ⟹   NP_001011911
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81476,789,197 - 76,802,765 (-)NCBI
mRatBN7.21472,576,882 - 72,590,451 (-)NCBI
Rnor_6.01477,308,215 - 77,321,783 (-)NCBI
Rnor_5.01477,290,073 - 77,303,793 (-)NCBI
RGSC_v3.41477,859,637 - 77,873,205 (-)RGD
Celera1471,527,386 - 71,540,966 (-)RGD
Sequence:
RefSeq Acc Id: XM_006251087   ⟹   XP_006251149
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81476,789,193 - 76,802,973 (-)NCBI
mRatBN7.21472,576,878 - 72,590,854 (-)NCBI
Rnor_6.01477,308,211 - 77,321,931 (-)NCBI
Rnor_5.01477,290,073 - 77,303,793 (-)NCBI
Sequence:
RefSeq Acc Id: XM_063272938   ⟹   XP_063129008
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81476,789,193 - 76,802,973 (-)NCBI
RefSeq Acc Id: XM_063272939   ⟹   XP_063129009
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81476,789,193 - 76,802,900 (-)NCBI
RefSeq Acc Id: XM_063272940   ⟹   XP_063129010
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81476,789,193 - 76,802,814 (-)NCBI
RefSeq Acc Id: XM_063272941   ⟹   XP_063129011
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81476,789,193 - 76,802,799 (-)NCBI
1 to 11 of 11 rows
Protein RefSeqs NP_001011911 (Get FASTA)   NCBI Sequence Viewer  
  XP_006251149 (Get FASTA)   NCBI Sequence Viewer  
  XP_063129008 (Get FASTA)   NCBI Sequence Viewer  
  XP_063129009 (Get FASTA)   NCBI Sequence Viewer  
  XP_063129010 (Get FASTA)   NCBI Sequence Viewer  
  XP_063129011 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH79008 (Get FASTA)   NCBI Sequence Viewer  
  EDM00005 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000007154
  ENSRNOP00000073585
GenBank Protein Q6AYK5 (Get FASTA)   NCBI Sequence Viewer  
1 to 11 of 11 rows
RefSeq Acc Id: NP_001011911   ⟸   NM_001011911
- UniProtKB: Q6AYK5 (UniProtKB/Swiss-Prot),   A6IJU1 (UniProtKB/TrEMBL),   A0A0G2K5W6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006251149   ⟸   XM_006251087
- Peptide Label: isoform X2
- UniProtKB: Q6AYK5 (UniProtKB/Swiss-Prot),   A6IJU1 (UniProtKB/TrEMBL),   A0A0G2K5W6 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000007154   ⟸   ENSRNOT00000007154
Ensembl Acc Id: ENSRNOP00000073585   ⟸   ENSRNOT00000084093
RefSeq Acc Id: XP_063129008   ⟸   XM_063272938
- Peptide Label: isoform X1
- UniProtKB: A0A8L2UI20 (UniProtKB/TrEMBL),   A0A0G2K5W6 (UniProtKB/TrEMBL)
Name Modeler Protein Id AA Range Protein Structure
AF-Q6AYK5-F1-model_v2 AlphaFold Q6AYK5 1-386 view protein structure


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

RGD ID:13699367
Promoter ID:EPDNEW_R9892
Type:initiation region
Name:Lyar_2
Description:Ly1 antibody reactive
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R9893  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01477,321,848 - 77,321,908EPDNEW
RGD ID:13699382
Promoter ID:EPDNEW_R9893
Type:initiation region
Name:Lyar_1
Description:Ly1 antibody reactive
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R9892  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01477,321,959 - 77,322,019EPDNEW


1 to 27 of 27 rows
Database
Acc Id
Source(s)
BioCyc Gene G2FUF-15384 BioCyc
Ensembl Genes ENSRNOG00000005374 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000007154 ENTREZGENE
  ENSRNOT00000084093 ENTREZGENE
Gene3D-CATH 1.10.10.2100 UniProtKB/Swiss-Prot
  3.30.1490.490 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7113133 IMAGE-MGC_LOAD
InterPro LYAR UniProtKB/Swiss-Prot
  Znf-ACC UniProtKB/Swiss-Prot
  Znf_C2H2_LYAR UniProtKB/Swiss-Prot
  Znf_C2H2_sf UniProtKB/Swiss-Prot
KEGG Report rno:289707 UniProtKB/Swiss-Prot
MGC_CLONE MGC:93922 IMAGE-MGC_LOAD
NCBI Gene 289707 ENTREZGENE
PANTHER CELL GROWTH-REGULATING NUCLEOLAR PROTEIN UniProtKB/Swiss-Prot
  PTHR13100 UniProtKB/Swiss-Prot
Pfam zf-ACC UniProtKB/Swiss-Prot
  zf-LYAR UniProtKB/Swiss-Prot
PhenoGen Lyar PhenoGen
PROSITE ADH_ZINC UniProtKB/Swiss-Prot
  ZF_C2HC_LYAR UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000005374 RatGTEx
Superfamily-SCOP SSF57667 UniProtKB/Swiss-Prot
UniProt A0A0G2K5W6 ENTREZGENE, UniProtKB/TrEMBL
  A0A8L2UI20 ENTREZGENE, UniProtKB/TrEMBL
  A6IJU1 ENTREZGENE, UniProtKB/TrEMBL
  LYAR_RAT UniProtKB/Swiss-Prot, ENTREZGENE
1 to 27 of 27 rows


Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-12-18 Lyar  Ly1 antibody reactive  Lyar  Ly1 antibody reactive homolog (mouse)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-18 Lyar  Ly1 antibody reactive homolog (mouse)  Lyar  Ly1 antibody reactive clone  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 Lyar  Ly1 antibody reactive clone  Lyar_predicted  Ly1 antibody reactive clone (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Lyar_predicted  Ly1 antibody reactive clone (predicted)      Symbol and Name status set to approved 70820 APPROVED