LARP6 (La ribonucleoprotein 6, translational regulator) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: LARP6 (La ribonucleoprotein 6, translational regulator) Sus scrofa
Analyze
Symbol: LARP6
Name: La ribonucleoprotein 6, translational regulator
RGD ID: 14169912
Description: ENCODES a protein that exhibits mRNA 5'-UTR binding (inferred); mRNA binding (inferred); myosin binding (inferred); INVOLVED IN positive regulation of collagen biosynthetic process (inferred); RNA processing (inferred); ASSOCIATED WITH Bloom syndrome (ortholog); colorectal cancer (ortholog); FOUND IN cytoplasm (inferred); nucleus (inferred); ribonucleoprotein complex (inferred); INTERACTS WITH deoxynivalenol
Type: protein-coding
RefSeq Status: MODEL
Previously known as: La ribonucleoprotein domain family member 6; la-related protein 6
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1168,507,976 - 168,530,239 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11168,508,472 - 168,530,439 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21186,790,170 - 186,814,740 (-)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

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

Biological Process

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
LARP6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1168,507,976 - 168,530,239 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11168,508,472 - 168,530,439 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21186,790,170 - 186,814,740 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LARP6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381570,829,130 - 70,854,157 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1570,829,130 - 70,854,157 (-)EnsemblGRCh38hg38GRCh38
GRCh371571,121,469 - 71,146,496 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361568,910,943 - 68,933,552 (-)NCBINCBI36Build 36hg18NCBI36
Celera1548,014,786 - 48,037,397 (-)NCBICelera
Cytogenetic Map15q23NCBI
HuRef1547,959,434 - 47,982,049 (-)NCBIHuRef
CHM1_11571,242,143 - 71,264,762 (-)NCBICHM1_1
T2T-CHM13v2.01568,652,085 - 68,677,121 (-)NCBIT2T-CHM13v2.0
Larp6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39960,620,404 - 60,646,084 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl960,620,272 - 60,646,084 (+)EnsemblGRCm39 Ensembl
GRCm38960,713,121 - 60,738,801 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl960,712,989 - 60,738,801 (+)EnsemblGRCm38mm10GRCm38
MGSCv37960,560,928 - 60,586,608 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36960,511,127 - 60,536,807 (+)NCBIMGSCv36mm8
Celera957,938,375 - 57,963,474 (+)NCBICelera
Cytogenetic Map9BNCBI
cM Map932.87NCBI
Larp6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8870,079,753 - 70,101,175 (+)NCBIGRCr8
mRatBN7.2861,183,744 - 61,205,548 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl861,184,116 - 61,205,535 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx866,692,453 - 66,713,653 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0864,965,027 - 64,986,227 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0862,834,883 - 62,856,084 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0865,611,570 - 65,632,706 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl865,611,570 - 65,632,706 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0865,362,299 - 65,382,759 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4864,655,008 - 64,676,258 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1864,674,131 - 64,694,704 (+)NCBI
Celera860,610,882 - 60,632,170 (+)NCBICelera
Cytogenetic Map8q24NCBI
Larp6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554506,050,057 - 6,073,379 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554506,050,260 - 6,073,388 (+)NCBIChiLan1.0ChiLan1.0
LARP6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21660,095,231 - 60,117,915 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11564,259,145 - 64,281,825 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01549,781,184 - 49,803,856 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11568,547,930 - 68,552,899 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1568,547,937 - 68,552,899 (-)Ensemblpanpan1.1panPan2
LARP6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13034,521,695 - 34,535,629 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3034,521,699 - 34,528,027 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3034,455,443 - 34,476,857 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03034,723,013 - 34,744,437 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3034,723,035 - 34,744,422 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13034,668,132 - 34,689,525 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03034,707,475 - 34,728,899 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03034,959,391 - 34,980,801 (-)NCBIUU_Cfam_GSD_1.0
Larp6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640112,521,849 - 112,539,209 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647130,370,440 - 30,385,518 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647130,369,912 - 30,387,272 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LARP6
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12612,605,050 - 12,626,661 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2612,605,147 - 12,628,761 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666048128,862,421 - 128,884,186 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Larp6
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247813,014,747 - 3,042,498 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247813,014,655 - 3,050,922 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in LARP6
433 total Variants

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

alimentary part of gastrointestinal system circulatory system endocrine system hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium 6
Low 5 4 3 4 2 17 2 3
Below cutoff 5 1 1

Sequence


RefSeq Acc Id: ENSSSCT00000005486   ⟹   ENSSSCP00000005349
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1168,507,976 - 168,530,239 (-)Ensembl
RefSeq Acc Id: XM_003121764   ⟹   XP_003121812
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11168,508,472 - 168,530,439 (-)NCBI
Sequence:
RefSeq Acc Id: XP_003121812   ⟸   XM_003121764
- UniProtKB: A0A4X1SXY3 (UniProtKB/TrEMBL),   F1SIT3 (UniProtKB/TrEMBL),   A0A480VQ15 (UniProtKB/TrEMBL),   A0A4X1SZ17 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000005349   ⟸   ENSSSCT00000005486
Protein Domains
HTH La-type RNA-binding   SUZ-C


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000004974 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00015020938 UniProtKB/TrEMBL
  ENSSSCG00025031236 UniProtKB/TrEMBL
  ENSSSCG00035029377 UniProtKB/TrEMBL
  ENSSSCG00040066775 UniProtKB/TrEMBL
  ENSSSCG00045019859 UniProtKB/TrEMBL
  ENSSSCG00050024175 UniProtKB/TrEMBL
  ENSSSCG00055005597 UniProtKB/TrEMBL
  ENSSSCG00060005573 UniProtKB/TrEMBL
  ENSSSCG00065074770 UniProtKB/TrEMBL
  ENSSSCG00070005031 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000005486 ENTREZGENE
  ENSSSCT00000005486.5 UniProtKB/TrEMBL
  ENSSSCT00015027650.1 UniProtKB/TrEMBL
  ENSSSCT00015027717.1 UniProtKB/TrEMBL
  ENSSSCT00025042449.1 UniProtKB/TrEMBL
  ENSSSCT00035038917.1 UniProtKB/TrEMBL
  ENSSSCT00040091229.1 UniProtKB/TrEMBL
  ENSSSCT00045033811.1 UniProtKB/TrEMBL
  ENSSSCT00050032582.1 UniProtKB/TrEMBL
  ENSSSCT00050032590.1 UniProtKB/TrEMBL
  ENSSSCT00055010914.1 UniProtKB/TrEMBL
  ENSSSCT00055010933.1 UniProtKB/TrEMBL
  ENSSSCT00060007039.1 UniProtKB/TrEMBL
  ENSSSCT00065103016.1 UniProtKB/TrEMBL
  ENSSSCT00070009521.1 UniProtKB/TrEMBL
  ENSSSCT00070009524.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.10.10 UniProtKB/TrEMBL
  3.30.70.330 UniProtKB/TrEMBL
InterPro La_dom_prot UniProtKB/TrEMBL
  La_HTH UniProtKB/TrEMBL
  LARP6_RRM UniProtKB/TrEMBL
  Lupus_La UniProtKB/TrEMBL
  Nucleotide-bd_a/b_plait_sf UniProtKB/TrEMBL
  RBD_domain_sf UniProtKB/TrEMBL
  SUZ-C UniProtKB/TrEMBL
  WH-like_DNA-bd_sf UniProtKB/TrEMBL
  WH_DNA-bd_sf UniProtKB/TrEMBL
KEGG Report ssc:100522415 UniProtKB/TrEMBL
NCBI Gene LARP6 ENTREZGENE
PANTHER PTHR22792 UniProtKB/TrEMBL
  PTHR22792:SF71 UniProtKB/TrEMBL
Pfam PF05383 UniProtKB/TrEMBL
  SUZ-C UniProtKB/TrEMBL
PRINTS LUPUSLA UniProtKB/TrEMBL
PROSITE HTH_LA UniProtKB/TrEMBL
  SUZ_C UniProtKB/TrEMBL
SMART SM00715 UniProtKB/TrEMBL
Superfamily-SCOP SSF46785 UniProtKB/TrEMBL
  SSF54928 UniProtKB/TrEMBL
UniProt A0A480VQ15 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1SXY3 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1SZ17 ENTREZGENE, UniProtKB/TrEMBL
  F1SIT3 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:89642 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-09-03 LARP6  La ribonucleoprotein 6, translational regulator  LARP6  La ribonucleoprotein domain family member 6  Symbol and/or name change 5135510 APPROVED