Lsm14a (LSM14A mRNA processing body assembly factor) - Rat Genome Database

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Gene: Lsm14a (LSM14A mRNA processing body assembly factor) Rattus norvegicus
Analyze
Symbol: Lsm14a
Name: LSM14A mRNA processing body assembly factor
RGD ID: 1305695
Description: Predicted to enable RNA binding activity and double-stranded DNA binding activity. Predicted to be involved in membraneless organelle assembly and negative regulation of translation. Predicted to act upstream of or within RIG-I signaling pathway; defense response to virus; and positive regulation of type I interferon-mediated signaling pathway. Predicted to be located in cytoplasmic stress granule and mitotic spindle. Predicted to be part of ribonucleoprotein complex. Predicted to be active in P-body. Orthologous to human LSM14A (LSM14A mRNA processing body assembly factor); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene; 2,6-dinitrotoluene.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC361554; LSM14 homolog A; LSM14 homolog A (SCD6, S. cerevisiae); LSM14A, SCD6 homolog A; LSM14A, SCD6 homolog A (S. cerevisiae); Protein LSM14 homolog A; RGD1305695; similar to RIKEN cDNA 2700023B17
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8196,101,990 - 96,146,578 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl196,101,992 - 96,146,448 (-)EnsemblGRCr8
mRatBN7.2186,964,800 - 87,009,325 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl186,964,828 - 87,009,276 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx192,369,445 - 92,413,687 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01100,835,447 - 100,879,687 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0194,127,754 - 94,171,995 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0190,200,866 - 90,246,292 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl190,200,876 - 90,246,297 (-)Ensemblrn6Rnor6.0
Rnor_5.0191,343,456 - 91,388,668 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4186,795,681 - 86,840,006 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera181,331,024 - 81,360,652 (-)NCBICelera
RGSC_v3.1186,873,519 - 86,918,182 (-)NCBI
Cytogenetic Map1q21NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

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. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:16484376   PMID:17074753   PMID:20014101   PMID:22658674   PMID:22681889   PMID:22745163  


Genomics

Comparative Map Data
Lsm14a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8196,101,990 - 96,146,578 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl196,101,992 - 96,146,448 (-)EnsemblGRCr8
mRatBN7.2186,964,800 - 87,009,325 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl186,964,828 - 87,009,276 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx192,369,445 - 92,413,687 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01100,835,447 - 100,879,687 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0194,127,754 - 94,171,995 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0190,200,866 - 90,246,292 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl190,200,876 - 90,246,297 (-)Ensemblrn6Rnor6.0
Rnor_5.0191,343,456 - 91,388,668 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4186,795,681 - 86,840,006 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera181,331,024 - 81,360,652 (-)NCBICelera
RGSC_v3.1186,873,519 - 86,918,182 (-)NCBI
Cytogenetic Map1q21NCBI
LSM14A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381934,172,504 - 34,229,288 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1934,172,426 - 34,229,302 (+)Ensemblhg38GRCh38
GRCh371934,663,409 - 34,720,193 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361939,355,311 - 39,412,048 (+)NCBIBuild 36Build 36hg18NCBI36
Build 341939,355,310 - 39,412,048NCBI
Celera1931,356,940 - 31,413,990 (+)NCBICelera
Cytogenetic Map19q13.11NCBI
HuRef1931,161,966 - 31,218,694 (+)NCBIHuRef
CHM1_11934,664,818 - 34,721,879 (+)NCBICHM1_1
T2T-CHM13v2.01936,693,004 - 36,749,747 (+)NCBIT2T-CHM13v2.0
Lsm14a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39734,043,569 - 34,089,134 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl734,044,071 - 34,092,740 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm38734,344,144 - 34,390,026 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl734,344,646 - 34,393,315 (-)Ensemblmm10GRCm38
MGSCv37735,129,738 - 35,174,559 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36734,053,479 - 34,098,300 (-)NCBIMGSCv36mm8
Celera729,486,917 - 29,531,984 (-)NCBICelera
Cytogenetic Map7B1NCBI
cM Map719.56NCBI
Lsm14a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554683,799,899 - 3,863,235 (+)Ensembl
ChiLan1.0NW_0049554683,799,897 - 3,863,241 (+)NCBIChiLan1.0ChiLan1.0
LSM14A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22040,148,647 - 40,208,181 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11942,148,734 - 42,209,496 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01931,099,211 - 31,159,930 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11939,831,117 - 39,891,803 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1939,831,117 - 39,891,794 (+)EnsemblpanPan2panpan1.1
LSM14A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11118,061,854 - 118,117,493 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1118,063,512 - 118,117,478 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1117,459,811 - 117,515,443 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01118,657,288 - 118,712,897 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1118,657,278 - 118,713,094 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11118,218,375 - 118,273,952 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01117,844,503 - 117,900,061 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01118,903,023 - 118,958,439 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Lsm14a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244093499,854,141 - 9,921,926 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365701,729,841 - 1,791,778 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365701,723,966 - 1,791,784 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LSM14A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl643,847,732 - 43,903,587 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1643,847,882 - 43,901,697 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2639,316,239 - 39,340,790 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LSM14A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1629,211,582 - 29,266,793 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl629,211,785 - 29,266,981 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_0236660736,982,252 - 7,042,034 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Lsm14a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247948,913,278 - 9,035,652 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Lsm14a
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v12164,299,832 - 164,344,322 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Lsm14a
88 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:150
Count of miRNA genes:108
Interacting mature miRNAs:129
Transcripts:ENSRNOT00000030186
Prediction methods:Miranda, 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
1578649Bmd8Bone mineral density QTL 84.9femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)151940904101229020Rat
1582234Gluco18Glucose level QTL 183.40.0003blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)187889942132889942Rat
634314Niddm44Non-insulin dependent diabetes mellitus QTL 44blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)151941022208479811Rat
1358359Sradr1Stress Responsive Adrenal Weight QTL 14.74adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)139728272132889942Rat
1578654Bss10Bone structure and strength QTL 104femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)151940904168768703Rat
2300324Fetw1Fetal weight QTL 112.10.005fetal growth trait (VT:0004201)fetal body weight (CMO:0002080)192963855109494029Rat
1331800Scl25Serum cholesterol level QTL 253.013blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)187785026142582336Rat
7421628Bp361Blood pressure QTL 3610.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183019780128019780Rat
631495Bp96Blood pressure QTL 964.52arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)166404680111404680Rat
70225Bp58Blood pressure QTL 583.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134184556172281316Rat
631512Scl6Serum cholesterol level QTL 69.6blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)18126986099645535Rat
2298545Neuinf8Neuroinflammation QTL 84.6nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)166009857160501508Rat
10059597Bp377Blood pressure QTL 3773.420.025arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134565911208798288Rat
631519Pia11Pristane induced arthritis QTL 115.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)193903998191260518Rat
1302788Scl19Serum cholesterol QTL 194.60.001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)166400974132889942Rat
1549903Bp267Blood pressure QTL 267arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)184107164115183752Rat
2313083Bmd74Bone mineral density QTL 7440.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)191302413136302413Rat
2313402Anxrr24Anxiety related response QTL 24aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)151511344153680016Rat
61342Bp27Blood pressure QTL 273.40.0006arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16540563796805205Rat
1358192Ept13Estrogen-induced pituitary tumorigenesis QTL 133.4pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)186622262131622262Rat
6903308Scl36Serum cholesterol QTL 3620.0125blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)158769992103769992Rat
2300164Bmd44Bone mineral density QTL 445.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)166077886111077886Rat
738022Anxrr13Anxiety related response QTL 134.60.00039locomotor behavior trait (VT:0001392)measurement of voluntary locomotion into, out of, or within a discrete space in an open field apparatus (CMO:0001514)192683681137683681Rat
10054135Gmadr2Adrenal mass QTL 21.970.0129adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)186993904131993904Rat
152025249Scl82Serum cholesterol level QTL 824.77blood cholesterol amount (VT:0000180)152891222109116986Rat
1331749Hrtrt11Heart rate QTL 112.973heart pumping trait (VT:2000009)heart rate (CMO:0000002)192683681137683681Rat
7411712Strs4Sensitivity to stroke QTL 48.7cerebrum integrity trait (VT:0010549)percentage of study population developing cerebrovascular lesions during a period of time (CMO:0000932)187558587132558587Rat

Markers in Region
BMON117  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2186,965,595 - 86,965,752 (+)MAPPERmRatBN7.2
Rnor_6.0190,201,662 - 90,201,818NCBIRnor6.0
Rnor_5.0191,344,240 - 91,344,396UniSTSRnor5.0
RGSC_v3.4186,796,390 - 86,796,546UniSTSRGSC3.4
Celera848,267,996 - 48,268,170UniSTS
Celera181,331,733 - 81,331,889UniSTS
Cytogenetic Map1q21UniSTS
RH125733  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2848,706,239 - 48,706,488 (+)MAPPERmRatBN7.2
mRatBN7.2186,964,821 - 86,965,070 (+)MAPPERmRatBN7.2
Rnor_6.0190,200,888 - 90,201,136NCBIRnor6.0
Rnor_6.0852,696,220 - 52,696,468NCBIRnor6.0
Rnor_5.0191,343,466 - 91,343,714UniSTSRnor5.0
RGSC_v3.4186,795,616 - 86,795,864UniSTSRGSC3.4
Celera848,267,224 - 48,267,472UniSTS
Celera181,330,959 - 81,331,207UniSTS
Cytogenetic Map1q21UniSTS
RH139115  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2186,965,934 - 86,966,061 (+)MAPPERmRatBN7.2
mRatBN7.2848,707,368 - 48,707,495 (+)MAPPERmRatBN7.2
Rnor_6.0190,202,001 - 90,202,127NCBIRnor6.0
Rnor_6.0852,699,286 - 52,699,412NCBIRnor6.0
Rnor_5.0191,344,579 - 91,344,705UniSTSRnor5.0
Rnor_5.0851,294,431 - 51,294,557UniSTSRnor5.0
RGSC_v3.4186,796,729 - 86,796,855UniSTSRGSC3.4
Celera848,268,353 - 48,268,479UniSTS
Celera181,332,072 - 81,332,198UniSTS
Cytogenetic Map1q21UniSTS
BM385860  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2187,008,201 - 87,008,391 (+)MAPPERmRatBN7.2
Rnor_6.0190,245,170 - 90,245,359NCBIRnor6.0
Rnor_5.0191,387,546 - 91,387,735UniSTSRnor5.0
RGSC_v3.4186,838,932 - 86,839,121UniSTSRGSC3.4
Celera181,374,354 - 81,374,543UniSTS
RH 3.4 Map1864.6UniSTS
Cytogenetic Map1q21UniSTS


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
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 165 91 90 59 92 59 6 356 192 11 144 81 92 31 17 17

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001127552 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001438113 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001438114 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001438115 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001438116 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001438117 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001438118 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006228856 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006228857 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017589354 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039082047 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039082050 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039082056 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063266518 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063266532 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide BC166537 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473979 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ227036 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ232232 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ233658 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000001 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000030186   ⟹   ENSRNOP00000030800
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl196,101,992 - 96,146,448 (-)Ensembl
mRatBN7.2 Ensembl186,964,889 - 87,009,276 (-)Ensembl
Rnor_6.0 Ensembl190,200,936 - 90,246,297 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000076255   ⟹   ENSRNOP00000068311
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl196,105,606 - 96,146,448 (-)Ensembl
mRatBN7.2 Ensembl186,964,828 - 87,009,248 (-)Ensembl
Rnor_6.0 Ensembl190,200,876 - 90,208,036 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000076967   ⟹   ENSRNOP00000068487
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl190,201,640 - 90,208,051 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000078585   ⟹   ENSRNOP00000069131
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl196,108,794 - 96,146,448 (-)Ensembl
mRatBN7.2 Ensembl186,971,614 - 87,009,248 (-)Ensembl
Rnor_6.0 Ensembl190,204,500 - 90,246,265 (-)Ensembl
RefSeq Acc Id: NM_001127552   ⟹   NP_001121024
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8196,102,065 - 96,146,448 (-)NCBI
mRatBN7.2186,964,887 - 87,009,276 (-)NCBI
Rnor_6.0190,200,953 - 90,246,243 (-)NCBI
Rnor_5.0191,343,456 - 91,388,668 (-)NCBI
RGSC_v3.4186,795,681 - 86,840,006 (-)RGD
Celera181,331,024 - 81,360,652 (-)RGD
Sequence:
RefSeq Acc Id: XM_006228856   ⟹   XP_006228918
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8196,101,990 - 96,146,578 (-)NCBI
mRatBN7.2186,964,800 - 87,009,325 (-)NCBI
Rnor_6.0190,200,866 - 90,246,292 (-)NCBI
Rnor_5.0191,343,456 - 91,388,668 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006228857   ⟹   XP_006228919
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8196,101,990 - 96,146,541 (-)NCBI
mRatBN7.2186,964,800 - 87,009,325 (-)NCBI
Rnor_6.0190,200,866 - 90,246,292 (-)NCBI
Rnor_5.0191,343,456 - 91,388,668 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017589354   ⟹   XP_017444843
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8196,101,990 - 96,146,543 (-)NCBI
mRatBN7.2186,964,800 - 87,009,325 (-)NCBI
Rnor_6.0190,200,866 - 90,246,292 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039082047   ⟹   XP_038937975
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8196,101,990 - 96,146,543 (-)NCBI
mRatBN7.2186,964,800 - 87,009,325 (-)NCBI
RefSeq Acc Id: XM_039082050   ⟹   XP_038937978
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8196,101,990 - 96,146,545 (-)NCBI
mRatBN7.2186,964,800 - 87,009,325 (-)NCBI
RefSeq Acc Id: XM_039082056   ⟹   XP_038937984
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8196,101,990 - 96,146,552 (-)NCBI
mRatBN7.2186,964,800 - 87,009,325 (-)NCBI
RefSeq Acc Id: XM_063266518   ⟹   XP_063122588
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8196,108,669 - 96,146,542 (-)NCBI
RefSeq Acc Id: XM_063266532   ⟹   XP_063122602
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8196,108,669 - 96,146,544 (-)NCBI
RefSeq Acc Id: NP_001121024   ⟸   NM_001127552
- UniProtKB: B2GV58 (UniProtKB/TrEMBL),   A0A0G2JUK2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006228918   ⟸   XM_006228856
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006228919   ⟸   XM_006228857
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_017444843   ⟸   XM_017589354
- Peptide Label: isoform X8
- Sequence:
Ensembl Acc Id: ENSRNOP00000030800   ⟸   ENSRNOT00000030186
Ensembl Acc Id: ENSRNOP00000069131   ⟸   ENSRNOT00000078585
Ensembl Acc Id: ENSRNOP00000068487   ⟸   ENSRNOT00000076967
Ensembl Acc Id: ENSRNOP00000068311   ⟸   ENSRNOT00000076255
RefSeq Acc Id: XP_038937984   ⟸   XM_039082056
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038937975   ⟸   XM_039082047
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038937978   ⟸   XM_039082050
- Peptide Label: isoform X5
RefSeq Acc Id: XP_063122602   ⟸   XM_063266532
- Peptide Label: isoform X6
- UniProtKB: A0A0G2JUK2 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063122588   ⟸   XM_063266518
- Peptide Label: isoform X1
- UniProtKB: A0A0G2JUK2 (UniProtKB/TrEMBL)
Protein Domains
DFDF   FFD box profile   Sm   TFG box profile

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-B2GV58-F1-model_v2 AlphaFold B2GV58 1-468 view protein structure

Transcriptome

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

Promoters
RGD ID:13689952
Promoter ID:EPDNEW_R475
Type:initiation region
Name:Lsm14a_1
Description:LSM14A mRNA processing body assembly factor
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_6.0190,246,278 - 90,246,338EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1305695 AgrOrtholog
BioCyc Gene G2FUF-60011 BioCyc
Ensembl Genes ENSRNOG00000021133 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000030186 ENTREZGENE
  ENSRNOT00000030186.9 UniProtKB/TrEMBL
  ENSRNOT00000076255 ENTREZGENE
  ENSRNOT00000076255.3 UniProtKB/TrEMBL
  ENSRNOT00000078585 ENTREZGENE
  ENSRNOT00000078585.3 UniProtKB/TrEMBL
Gene3D-CATH 2.30.30.100 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7191211 IMAGE-MGC_LOAD
InterPro DFDF UniProtKB/TrEMBL
  DFDF_motif UniProtKB/TrEMBL
  FFD_box UniProtKB/TrEMBL
  IPR047575 UniProtKB/TrEMBL
  LSM_related_domain UniProtKB/TrEMBL
  Scd6-like_Sm_dom UniProtKB/TrEMBL
  TFG_box UniProtKB/TrEMBL
KEGG Report rno:361554 UniProtKB/TrEMBL
MGC_CLONE MGC:188130 IMAGE-MGC_LOAD
NCBI Gene 361554 ENTREZGENE
PANTHER PROTEIN LSM14 HOMOLOG A UniProtKB/TrEMBL
  SCD6 PROTEIN-RELATED UniProtKB/TrEMBL
Pfam DFDF UniProtKB/TrEMBL
  LSM14 UniProtKB/TrEMBL
PhenoGen Lsm14a PhenoGen
PROSITE DFDF UniProtKB/TrEMBL
  FFD UniProtKB/TrEMBL
  PS52002 UniProtKB/TrEMBL
  TFG UniProtKB/TrEMBL
RatGTEx ENSRNOG00000021133 RatGTEx
SMART FDF UniProtKB/TrEMBL
  LSM14 UniProtKB/TrEMBL
Superfamily-SCOP Sm_like_riboprot UniProtKB/TrEMBL
UniProt A0A096MJY7 ENTREZGENE, UniProtKB/TrEMBL
  A0A0G2JUK2 ENTREZGENE, UniProtKB/TrEMBL
  B2GV58 ENTREZGENE, UniProtKB/TrEMBL
  F7FER3_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-07-01 Lsm14a  LSM14A mRNA processing body assembly factor  Lsm14a  LSM14A, SCD6 homolog A (S. cerevisiae)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-18 Lsm14a  LSM14A, SCD6 homolog A (S. cerevisiae)  Lsm14a  LSM14 homolog A (SCD6, S. cerevisiae)   Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Lsm14a  LSM14 homolog A (SCD6, S. cerevisiae)   Lsm14a_predicted  LSM14 homolog A (SCD6, S. cerevisiae) (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-30 Lsm14a_predicted  LSM14 homolog A (SCD6, S. cerevisiae) (predicted)  RGD1305695_predicted  similar to RIKEN cDNA 2700023B17 (predicted)  Symbol and Name updated 1299863 APPROVED
2005-01-20 RGD1305695_predicted  similar to RIKEN cDNA 2700023B17 (predicted)  LOC361554_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC361554_predicted  similar to RIKEN cDNA 2700023B17 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL