Dus4l (dihydrouridine synthase 4-like) - Rat Genome Database

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Gene: Dus4l (dihydrouridine synthase 4-like) Rattus norvegicus
Analyze
Symbol: Dus4l
Name: dihydrouridine synthase 4-like
RGD ID: 1311445
Description: Predicted to enable tRNA dihydrouridine synthase activity. Predicted to be involved in tRNA dihydrouridine synthesis. Orthologous to human DUS4L (dihydrouridine synthase 4 like); INTERACTS WITH (+)-schisandrin B; 2,3,7,8-tetrachlorodibenzodioxine; amphetamine.
Type: protein-coding
RefSeq Status: INFERRED
Previously known as: dihydrouridine synthase 4-like (S. cerevisiae); LOC366593; RGD1311445; similar to protein similar to E.coli yhdg and R. capsulatus nifR3; tRNA-dihydrouridine synthase 4-like; tRNA-dihydrouridine(20a/20b) synthase [NAD(P)+]-like
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2648,228,111 - 48,242,553 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl648,228,111 - 48,242,449 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx648,535,417 - 48,549,863 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0648,850,336 - 48,864,780 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0648,290,505 - 48,305,066 (-)NCBIRnor_WKY
Rnor_6.0650,925,987 - 50,943,546 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl650,928,397 - 50,943,488 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0659,601,164 - 59,615,497 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4649,509,843 - 49,524,168 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1649,513,642 - 49,527,787 (-)NCBI
Celera647,430,268 - 47,444,594 (-)NCBICelera
Cytogenetic Map6q16NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

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. GOA pipeline RGD automated data pipeline
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Dus4l
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2648,228,111 - 48,242,553 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl648,228,111 - 48,242,449 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx648,535,417 - 48,549,863 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0648,850,336 - 48,864,780 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0648,290,505 - 48,305,066 (-)NCBIRnor_WKY
Rnor_6.0650,925,987 - 50,943,546 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl650,928,397 - 50,943,488 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0659,601,164 - 59,615,497 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4649,509,843 - 49,524,168 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1649,513,642 - 49,527,787 (-)NCBI
Celera647,430,268 - 47,444,594 (-)NCBICelera
Cytogenetic Map6q16NCBI
DUS4L
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh387107,563,971 - 107,578,523 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl7107,563,484 - 107,578,523 (+)EnsemblGRCh38hg38GRCh38
GRCh377107,204,416 - 107,218,968 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 367106,991,668 - 107,006,204 (+)NCBINCBI36Build 36hg18NCBI36
Celera7102,009,704 - 102,024,239 (+)NCBICelera
Cytogenetic Map7q22.3NCBI
HuRef7101,565,027 - 101,579,590 (+)NCBIHuRef
CHM1_17107,138,353 - 107,152,919 (+)NCBICHM1_1
T2T-CHM13v2.07108,880,017 - 108,894,566 (+)NCBIT2T-CHM13v2.0
CRA_TCAGchr7v27106,565,491 - 106,580,056 (+)NCBI
Dus4l
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391231,690,049 - 31,704,834 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1231,690,049 - 31,704,825 (-)EnsemblGRCm39 Ensembl
GRCm381231,640,050 - 31,654,866 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1231,640,050 - 31,654,826 (-)EnsemblGRCm38mm10GRCm38
MGSCv371232,324,920 - 32,339,691 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361232,225,302 - 32,240,073 (-)NCBIMGSCv36mm8
Celera1233,089,785 - 33,104,549 (-)NCBICelera
Cytogenetic Map12A3NCBI
Dus4l
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541011,919,625 - 11,932,393 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541011,919,710 - 11,931,593 (+)NCBIChiLan1.0ChiLan1.0
DUS4L
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.17112,266,481 - 112,280,968 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl7112,266,481 - 112,280,968 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0799,542,894 - 99,557,478 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
DUS4L
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11813,023,755 - 13,040,180 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1813,023,744 - 13,039,817 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1812,667,551 - 12,684,040 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01813,294,967 - 13,311,458 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1813,294,969 - 13,311,445 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11813,111,362 - 13,127,846 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01813,031,526 - 13,048,011 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01813,308,999 - 13,325,491 (-)NCBIUU_Cfam_GSD_1.0
DUS4L
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl9107,273,736 - 107,289,670 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.19107,273,571 - 107,291,494 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.29118,033,713 - 118,044,556 (+)NCBISscrofa10.2Sscrofa10.2susScr3
DUS4L
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12176,485,276 - 76,498,551 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2176,485,098 - 76,499,649 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604227,365,146 - 27,378,843 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Dus4l
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473922,173,124 - 22,188,396 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473922,173,117 - 22,188,436 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Dus4l
64 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:524
Count of miRNA genes:248
Interacting mature miRNAs:299
Transcripts:ENSRNOT00000068419
Prediction methods:Microtar, 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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2301972Bp325Blood pressure QTL 3254.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)6172227641Rat
1300164Rf15Renal function QTL 153.12renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)6507449754641141Rat
4145119Mcs25Mammary carcinoma susceptibility QTL 250.0001mammary gland integrity trait (VT:0010552)ratio of deaths to total study population during a period of time (CMO:0001023)610894415110548006Rat
1578665Bss16Bone structure and strength QTL 164.4femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)61173566972593685Rat
1578668Bmd14Bone mineral density QTL 143.8femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)61173566972593685Rat
10401812Kidm54Kidney mass QTL 54kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)61436878859368788Rat
10401800Kidm49Kidney mass QTL 49kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)61436878859368788Rat
1576309Emca7Estrogen-induced mammary cancer QTL 74mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)615107216107351382Rat
2292589Emca10Estrogen-induced mammary cancer QTL 100.048mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)61653614061536140Rat
1354664Slep2Serum leptin concentration QTL 24.49blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)61653614071636405Rat
1641898Colcr4Colorectal carcinoma resistance QTL43.710.0007intestine integrity trait (VT:0010554)well differentiated malignant colorectal tumor surface area measurement (CMO:0002077)62033877762613667Rat
2293839Kiddil2Kidney dilation QTL 24.8kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)62086642281133036Rat
2293841Kiddil4Kidney dilation QTL 44.4kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)62086642281133036Rat
1331779Rf38Renal function QTL 382.876kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)63207442872227641Rat
634318Bw118Body weight QTL 1183.55abdominal fat pad mass (VT:1000711)abdominal fat pad weight (CMO:0000088)63330954957730294Rat
6893340Cm77Cardiac mass QTL 770.260.57heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)63330954981132889Rat
1300143Rf14Renal function QTL 142.92renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)63443413777102317Rat
1354632Scl29Serum cholesterol level QTL 293.74blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)63509870971636405Rat
634307Bp141Blood pressure QTL 1414arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)63523041780230417Rat
70199Coreg1Compensatory renal growth QTL 111.8kidney mass (VT:0002707)compensatory renal growth score (CMO:0001894)63569161857730540Rat
9590290Uminl2Urine mineral level QTL 23.960.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)63878398983783989Rat
9590306Scort18Serum corticosterone level QTL 182.880.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)63878398983783989Rat
9590140Scort4Serum corticosterone level QTL 414.490.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)63878398983783989Rat
634330Pia16Pristane induced arthritis QTL 163.9joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)645790088104200226Rat


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 exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 1
Low 3 43 57 41 19 41 8 11 74 35 40 11 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000068419   ⟹   ENSRNOP00000061112
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl648,228,111 - 48,242,449 (-)Ensembl
Rnor_6.0 Ensembl650,929,162 - 50,943,488 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000084533   ⟹   ENSRNOP00000072651
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl648,228,111 - 48,242,380 (-)Ensembl
Rnor_6.0 Ensembl650,928,397 - 50,941,248 (-)Ensembl
RefSeq Acc Id: NM_001135803   ⟹   NP_001129275
RefSeq Status: INFERRED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2648,228,117 - 48,242,444 (-)NCBI
Rnor_6.0650,929,162 - 50,943,488 (-)NCBI
Rnor_5.0659,601,164 - 59,615,497 (-)NCBI
RGSC_v3.4649,509,843 - 49,524,168 (-)RGD
Celera647,430,268 - 47,444,594 (-)RGD
Sequence:
RefSeq Acc Id: XM_006239993   ⟹   XP_006240055
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2648,228,111 - 48,242,553 (-)NCBI
Rnor_6.0650,929,156 - 50,943,546 (-)NCBI
Rnor_5.0659,601,164 - 59,615,497 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008764601   ⟹   XP_008762823
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2648,228,111 - 48,240,069 (-)NCBI
Rnor_6.0650,929,156 - 50,941,062 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039112625   ⟹   XP_038968553
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2648,228,111 - 48,242,553 (-)NCBI
RefSeq Acc Id: XM_039112626   ⟹   XP_038968554
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2648,228,111 - 48,240,069 (-)NCBI
RefSeq Acc Id: XM_039112627   ⟹   XP_038968555
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2648,229,804 - 48,242,553 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001129275   ⟸   NM_001135803
- UniProtKB: D4A0T1 (UniProtKB/TrEMBL),   A0A0G2K3I5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006240055   ⟸   XM_006239993
- Peptide Label: isoform X2
- UniProtKB: D4A0T1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008762823   ⟸   XM_008764601
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: ENSRNOP00000072651   ⟸   ENSRNOT00000084533
RefSeq Acc Id: ENSRNOP00000061112   ⟸   ENSRNOT00000068419
RefSeq Acc Id: XP_038968553   ⟸   XM_039112625
- Peptide Label: isoform X1
- UniProtKB: D4A0T1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038968554   ⟸   XM_039112626
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038968555   ⟸   XM_039112627
- Peptide Label: isoform X5
Protein Domains
Dus

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2K3I5-F1-model_v2 AlphaFold A0A0G2K3I5 1-347 view protein structure

Transcriptome

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

Promoters
RGD ID:13694545
Promoter ID:EPDNEW_R5069
Type:single initiation site
Name:Dus4l_1
Description:dihydrouridine synthase 4-like
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_6.0650,943,495 - 50,943,555EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1311445 AgrOrtholog
BioCyc Gene G2FUF-37905 BioCyc
Ensembl Genes ENSRNOG00000008155 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000061112 ENTREZGENE
  ENSRNOP00000061112.2 UniProtKB/TrEMBL
  ENSRNOP00000072651 ENTREZGENE
  ENSRNOP00000072651.2 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000068419 ENTREZGENE
  ENSRNOT00000068419.2 UniProtKB/TrEMBL
  ENSRNOT00000084533 ENTREZGENE
  ENSRNOT00000084533.2 UniProtKB/TrEMBL
Gene3D-CATH 3.20.20.70 UniProtKB/TrEMBL
InterPro Aldolase_TIM UniProtKB/TrEMBL
  DUS-like_FMN-bd UniProtKB/TrEMBL
  tRNA_hU_synthase UniProtKB/TrEMBL
  tRNA_hU_synthase_CS UniProtKB/TrEMBL
KEGG Report rno:366593 UniProtKB/TrEMBL
NCBI Gene 366593 ENTREZGENE
Pfam Dus UniProtKB/TrEMBL
PhenoGen Dus4l PhenoGen
PIRSF Dus UniProtKB/TrEMBL
PROSITE UPF0034 UniProtKB/TrEMBL
UniProt A0A0G2K3I5 ENTREZGENE, UniProtKB/TrEMBL
  D4A0T1 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-07-09 Dus4l  dihydrouridine synthase 4-like  Dus4l  dihydrouridine synthase 4-like (S. cerevisiae)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Dus4l  dihydrouridine synthase 4-like (S. cerevisiae)   Dus4l_predicted  dihydrouridine synthase 4-like (S. cerevisiae) (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-30 Dus4l_predicted  dihydrouridine synthase 4-like (S. cerevisiae) (predicted)  RGD1311445_predicted  similar to protein similar to E.coli yhdg and R. capsulatus nifR3 (predicted)  Symbol and Name updated 1299863 APPROVED
2005-01-20 RGD1311445_predicted  similar to protein similar to E.coli yhdg and R. capsulatus nifR3 (predicted)  LOC366593_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC366593_predicted  similar to protein similar to E.coli yhdg and R. capsulatus nifR3 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL