Ltv1 (LTV1 ribosome biogenesis factor) - Rat Genome Database

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Gene: Ltv1 (LTV1 ribosome biogenesis factor) Rattus norvegicus
Analyze
Symbol: Ltv1
Name: LTV1 ribosome biogenesis factor
RGD ID: 1311264
Description: Predicted to be involved in ribosomal small subunit biogenesis and ribosomal small subunit export from nucleus. Predicted to be located in nucleoplasm. Predicted to be part of preribosome, small subunit precursor. Predicted to be active in cytosol and nucleus. Human ortholog(s) of this gene implicated in inflammatory poikiloderma with hair abnormalities and acral keratoses. Orthologous to human LTV1 (LTV1 ribosome biogenesis factor); PARTICIPATES IN ribosome biogenesis pathway; INTERACTS WITH 17beta-estradiol; 2,4-dinitrotoluene; 2,6-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC361452; LTV1 homolog; LTV1 homolog (S. cerevisiae); RGD1311264; similar to hypothetical protein FLJ14909
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
GRCr819,385,834 - 9,398,557 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl19,385,830 - 9,398,677 (-)EnsemblGRCr8
mRatBN7.217,565,673 - 7,578,398 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl17,565,669 - 7,578,563 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx17,262,122 - 7,274,861 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0113,261,245 - 13,273,984 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.017,544,410 - 7,557,149 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.017,323,043 - 7,335,766 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl17,323,040 - 7,335,936 (-)Ensemblrn6Rnor6.0
Rnor_5.018,958,291 - 8,971,014 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.417,956,276 - 7,968,999 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera16,054,558 - 6,067,290 (-)NCBICelera
RGSC_v3.117,956,277 - 7,968,999 (-)NCBI
Cytogenetic Map1p13NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
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. Maturation of eukaryotic ribosomes: acquisition of functionality. Panse VG and Johnson AW, Trends Biochem Sci. 2010 May;35(5):260-6. doi: 10.1016/j.tibs.2010.01.001.
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
4. Comprehensive gene review and curation RGD comprehensive gene curation
5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
6. CK1delta and CK1epsilon are components of human 40S subunit precursors required for cytoplasmic 40S maturation. Zemp I, etal., J Cell Sci. 2014 Mar 15;127(Pt 6):1242-53. doi: 10.1242/jcs.138719. Epub 2014 Jan 14.
Additional References at PubMed
PMID:35352799  


Genomics

Comparative Map Data
Ltv1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr819,385,834 - 9,398,557 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl19,385,830 - 9,398,677 (-)EnsemblGRCr8
mRatBN7.217,565,673 - 7,578,398 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl17,565,669 - 7,578,563 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx17,262,122 - 7,274,861 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0113,261,245 - 13,273,984 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.017,544,410 - 7,557,149 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.017,323,043 - 7,335,766 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl17,323,040 - 7,335,936 (-)Ensemblrn6Rnor6.0
Rnor_5.018,958,291 - 8,971,014 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.417,956,276 - 7,968,999 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera16,054,558 - 6,067,290 (-)NCBICelera
RGSC_v3.117,956,277 - 7,968,999 (-)NCBI
Cytogenetic Map1p13NCBI
LTV1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh386143,843,338 - 143,863,812 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl6143,843,326 - 143,863,812 (+)Ensemblhg38GRCh38
GRCh376144,164,475 - 144,184,949 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 366144,206,201 - 144,226,636 (+)NCBIBuild 36Build 36hg18NCBI36
Build 346144,206,200 - 144,226,634NCBI
Celera6144,904,917 - 144,925,352 (+)NCBICelera
Cytogenetic Map6q24.2NCBI
HuRef6141,728,279 - 141,748,714 (+)NCBIHuRef
CHM1_16144,427,386 - 144,447,836 (+)NCBICHM1_1
T2T-CHM13v2.06145,036,018 - 145,056,492 (+)NCBIT2T-CHM13v2.0
Ltv1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391013,054,341 - 13,068,881 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1013,053,884 - 13,068,912 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381013,178,597 - 13,193,137 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1013,178,140 - 13,193,168 (-)Ensemblmm10GRCm38
MGSCv371012,898,443 - 12,912,943 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361012,868,338 - 12,883,320 (-)NCBIMGSCv36mm8
Celera1013,077,424 - 13,091,756 (-)NCBICelera
Cytogenetic Map10A2NCBI
cM Map104.72NCBI
Ltv1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543616,580,704 - 16,592,044 (-)Ensembl
ChiLan1.0NW_00495543616,580,412 - 16,593,093 (-)NCBIChiLan1.0ChiLan1.0
LTV1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v25163,821,765 - 163,845,985 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan16161,716,246 - 161,740,467 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v06141,618,967 - 141,639,525 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.16146,338,914 - 146,359,457 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl6146,340,044 - 146,359,171 (+)EnsemblpanPan2panpan1.1
LTV1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1135,360,262 - 35,373,832 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha136,256,143 - 36,269,711 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0135,541,320 - 35,554,892 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl135,541,357 - 35,594,842 (+)EnsemblROS_Cfam_1.0 Ensembl
ROS_Cfam_1.0 Ensembl135,544,535 - 35,549,686 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1135,401,761 - 35,415,334 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0135,287,018 - 35,300,585 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0135,597,259 - 35,610,834 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Ltv1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404946130,309,860 - 130,322,330 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366252,312,472 - 2,325,799 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049366252,313,232 - 2,325,739 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LTV1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl121,412,286 - 21,430,195 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1121,406,949 - 21,430,252 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2123,807,023 - 23,818,338 (+)NCBISscrofa10.2Sscrofa10.2susScr3
LTV1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11329,362,386 - 29,380,831 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1329,361,750 - 29,380,911 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_0236660401,494,965 - 1,513,448 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ltv1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462475310,428,383 - 10,444,913 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Ltv1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v12224,001,183 - 224,015,441 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Ltv1
159 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:27
Count of miRNA genes:23
Interacting mature miRNAs:27
Transcripts:ENSRNOT00000020453
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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2313090Bmd69Bone mineral density QTL 694.40.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)1529322934184556Rat
631688Hcas2Hepatocarcinoma susceptibility QTL 230.0001liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1774611852746118Rat
4889451Eae29Experimental allergic encephalomyelitis QTL 295.51nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)1774612152746121Rat
70179Xhs2X-ray hypersensitivity QTL 23.2intestine integrity trait (VT:0010554)post-insult time to onset of moribundity (CMO:0001896)1143965634Rat
1354647Despr8Despair related QTL 80.0000341locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1126564886Rat
7421626Bp360Blood pressure QTL 3600.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1694102251941022Rat
2313070Bss52Bone structure and strength QTL 524.40.0001body length (VT:0001256)body length (CMO:0000013)1529322934184556Rat
1357401Bw43Body weight QTL 433.75body mass (VT:0001259)body weight (CMO:0000012)1690935351909353Rat
1600360Mcs16Mammary carcinoma susceptibility QTL 162.4mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1126564886Rat
5684998Bss101Bone structure and strength QTL 1013.6tibia strength trait (VT:1000284)tibia ultimate force (CMO:0001734)1690935351909353Rat
5684999Bss102Bone structure and strength QTL 1025.57e-07tibia strength trait (VT:1000284)tibia stiffness (CMO:0001735)1690935351909353Rat
2317755Glom22Glomerulus QTL 223.8urine protein amount (VT:0005160)urine protein level (CMO:0000591)1134184556Rat
1300170Rf6Renal function QTL 63.14renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)1128483164Rat
2313053Bss51Bone structure and strength QTL 513.80.0001tibia length (VT:0004357)tibia length (CMO:0000450)1529322934184556Rat

Markers in Region
RH134566  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.217,565,791 - 7,566,003 (+)MAPPERmRatBN7.2
Rnor_6.017,323,162 - 7,323,373NCBIRnor6.0
Rnor_5.018,958,410 - 8,958,621UniSTSRnor5.0
RGSC_v3.417,956,395 - 7,956,606UniSTSRGSC3.4
Celera16,054,677 - 6,054,888UniSTS
RH 3.4 Map1110.3UniSTS
Cytogenetic Map1p13UniSTS


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 67 164 91 90 59 92 59 6 356 192 11 143 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000020453   ⟹   ENSRNOP00000020453
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl19,385,830 - 9,398,677 (-)Ensembl
mRatBN7.2 Ensembl17,565,678 - 7,578,563 (-)Ensembl
Rnor_6.0 Ensembl17,323,040 - 7,335,936 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000095261   ⟹   ENSRNOP00000090118
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl17,565,669 - 7,576,668 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000106506   ⟹   ENSRNOP00000083961
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl19,385,830 - 9,397,863 (-)Ensembl
mRatBN7.2 Ensembl17,565,669 - 7,577,704 (-)Ensembl
RefSeq Acc Id: NM_001014157   ⟹   NP_001014179
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr819,385,834 - 9,398,557 (-)NCBI
mRatBN7.217,565,673 - 7,578,398 (-)NCBI
Rnor_6.017,323,043 - 7,335,766 (-)NCBI
Rnor_5.018,958,291 - 8,971,014 (-)NCBI
RGSC_v3.417,956,276 - 7,968,999 (-)RGD
Celera16,054,558 - 6,067,290 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001014179 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH79397 (Get FASTA)   NCBI Sequence Viewer  
  EDL93727 (Get FASTA)   NCBI Sequence Viewer  
  EDL93728 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000020453
  ENSRNOP00000020453.4
GenBank Protein Q68FR7 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001014179   ⟸   NM_001014157
- UniProtKB: Q68FR7 (UniProtKB/Swiss-Prot),   A0A8I5ZXR8 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000020453   ⟸   ENSRNOT00000020453
Ensembl Acc Id: ENSRNOP00000083961   ⟸   ENSRNOT00000106506
Ensembl Acc Id: ENSRNOP00000090118   ⟸   ENSRNOT00000095261

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q68FR7-F1-model_v2 AlphaFold Q68FR7 1-470 view protein structure

Transcriptome

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

Promoters
RGD ID:13689494
Promoter ID:EPDNEW_R19
Type:initiation region
Name:Ltv1_1
Description:LTV1 ribosome biogenesis 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_6.017,335,860 - 7,335,920EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1311264 AgrOrtholog
BioCyc Gene G2FUF-62365 BioCyc
Ensembl Genes ENSRNOG00000015217 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000020453 ENTREZGENE
  ENSRNOT00000020453.7 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7112501 IMAGE-MGC_LOAD
InterPro Ltv1 UniProtKB/Swiss-Prot
KEGG Report rno:361452 UniProtKB/Swiss-Prot
MGC_CLONE MGC:94927 IMAGE-MGC_LOAD
NCBI Gene 361452 ENTREZGENE
PANTHER PROTEIN LTV1 HOMOLOG UniProtKB/Swiss-Prot
  PTHR21531 UniProtKB/Swiss-Prot
Pfam LTV UniProtKB/Swiss-Prot
PhenoGen Ltv1 PhenoGen
RatGTEx ENSRNOG00000015217 RatGTEx
UniProt A0A8I5ZXR8 ENTREZGENE, UniProtKB/TrEMBL
  A6JP55_RAT UniProtKB/TrEMBL
  A6JP56_RAT UniProtKB/TrEMBL
  LTV1_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2014-02-13 Ltv1  LTV1 ribosome biogenesis factor  Ltv1  LTV1 homolog (S. cerevisiae)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Ltv1  LTV1 homolog (S. cerevisiae)  RGD1311264  similar to hypothetical protein FLJ14909  Symbol and Name updated 1299863 APPROVED
2005-12-06 RGD1311264  similar to hypothetical protein FLJ14909  RGD1311264_predicted  similar to hypothetical protein FLJ14909 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-20 RGD1311264_predicted  similar to hypothetical protein FLJ14909 (predicted)  LOC361452_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC361452_predicted  similar to hypothetical protein FLJ14909 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL