LOC120099394 (U6 spliceosomal RNA) - Rat Genome Database

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Gene: LOC120099394 (U6 spliceosomal RNA) Rattus norvegicus
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Symbol: LOC120099394 (Ensembl: U6)
Name: U6 spliceosomal RNA
RGD ID: 41379055
Description: Predicted to enable U4 snRNA binding activity. Predicted to be involved in formation of quadruple SL/U4/U5/U6 snRNP and spliceosomal tri-snRNP complex assembly. Predicted to be part of U4/U6 x U5 tri-snRNP complex and U6 snRNP. Orthologous to human RNU6-140P (RNA, U6 small nuclear 140, pseudogene).
Type: snrna
RefSeq Status: MODEL
RGD Orthologs
Human
Mouse
Dog
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X70,152,079 - 70,152,185 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 EnsemblX70,152,079 - 70,152,185 (+)EnsemblGRCr8
mRatBN7.2X66,112,056 - 66,112,162 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX66,112,056 - 66,112,162 (+)EnsemblmRatBN7.2
Cytogenetic MapXq22NCBI
JBrowse:




References

Genomics

Comparative Map Data
LOC120099394
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X70,152,079 - 70,152,185 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 EnsemblX70,152,079 - 70,152,185 (+)EnsemblGRCr8
mRatBN7.2X66,112,056 - 66,112,162 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX66,112,056 - 66,112,162 (+)EnsemblmRatBN7.2
Cytogenetic MapXq22NCBI
RNU6-140P
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381938,797,003 - 38,797,109 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1938,797,002 - 38,797,109 (-)Ensemblhg38GRCh38
GRCh371939,287,643 - 39,287,749 (-)NCBIGRCh37GRCh37hg19GRCh37
Cytogenetic Map19q13.2NCBI
T2T-CHM13v2.01941,601,048 - 41,601,154 (-)NCBIT2T-CHM13v2.0
Gm23520
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391138,688,998 - 38,689,104 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1138,688,998 - 38,689,104 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381138,798,171 - 38,798,277 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1138,798,171 - 38,798,277 (-)Ensemblmm10GRCm38
Cytogenetic Map11A5NCBI
LOC119868707
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Dog10K_Boxer_TashaX78,690,327 - 78,690,433 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0X94,404,768 - 94,404,874 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX94,404,768 - 94,404,874 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X91,854,405 - 91,854,511 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X93,616,954 - 93,617,060 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X93,391,839 - 93,391,945 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
738035Stresp1Stress response QTL 14.960.000011stress-related behavior trait (VT:0010451)defensive burying - copingX45182909117740458Rat
1598837Memor13Memory QTL 133.2exploratory behavior trait (VT:0010471)difference between duration of physical contact or close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X4493088389930883Rat


Expression

RNA-SEQ Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts XR_005498583 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JAXUCZ010000021 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000103483
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 EnsemblX70,152,079 - 70,152,185 (+)Ensembl
mRatBN7.2 EnsemblX66,112,056 - 66,112,162 (+)Ensembl
RefSeq Acc Id: XR_005498583
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X70,152,079 - 70,152,185 (+)NCBI
mRatBN7.2X66,112,056 - 66,112,162 (+)NCBI
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:41379055 AgrOrtholog
BioCyc Gene G2FUF-2115 BioCyc
Ensembl Genes ENSRNOG00000067447 Ensembl
  ENSRNOG00000074601 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000103483 ENTREZGENE
NCBI Gene LOC120099394 ENTREZGENE
PhenoGen LOC120099394 PhenoGen
RatGTEx ENSRNOG00000067447 RatGTEx
  ENSRNOG00000074601 RatGTEx
RNAcentral URS000072B691 RNACentral


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-01-27 LOC120099394  U6 spliceosomal RNA      Symbol and Name status set to provisional 70820 PROVISIONAL