Hltf (helicase-like transcription factor) - Rat Genome Database

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Gene: Hltf (helicase-like transcription factor) Rattus norvegicus
Analyze
Symbol: Hltf
Name: helicase-like transcription factor
RGD ID: 1309031
Description: Predicted to enable several functions, including DNA translocase activity; single-stranded DNA binding activity; and ubiquitin protein ligase binding activity. Predicted to be involved in several processes, including DNA metabolic process; mRNA transcription by RNA polymerase II; and positive regulation of transcription by RNA polymerase II. Predicted to act upstream of or within DNA damage response. Predicted to be located in nuclear replication fork. Predicted to be part of RNA polymerase II transcription regulator complex. Predicted to be active in nucleus. Orthologous to human HLTF (helicase like transcription factor); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; acetamide; aflatoxin B1.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC295568; Smarca3; Snf2l3; SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 3
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
GRCr82104,478,725 - 104,538,531 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl2104,478,772 - 104,538,818 (+)EnsemblGRCr8
mRatBN7.22102,549,724 - 102,609,492 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2102,549,724 - 102,609,327 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx2109,063,231 - 109,122,470 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02107,184,391 - 107,243,629 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02102,148,291 - 102,207,981 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.02104,854,571 - 104,914,338 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2104,854,572 - 104,914,173 (+)Ensemblrn6Rnor6.0
Rnor_5.02124,574,548 - 124,634,389 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.42105,202,487 - 105,262,107 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera297,919,578 - 97,979,241 (+)NCBICelera
RGSC_v3.12105,148,839 - 105,205,382 (+)NCBI
Cytogenetic Map2q24NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-epigallocatechin 3-gallate  (ISO)
(S)-nicotine  (ISO)
1,2-dimethylhydrazine  (ISO)
17beta-estradiol  (ISO)
2,3',4,4',5-Pentachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2-methylcholine  (ISO)
2-naphthylamine  (ISO)
2-palmitoylglycerol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-aza-2'-deoxycytidine  (ISO)
acetamide  (EXP)
aflatoxin B1  (EXP,ISO)
all-trans-retinoic acid  (ISO)
antimonite  (ISO)
antirheumatic drug  (ISO)
aristolochic acid A  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
benzo[a]pyrene  (ISO)
bisphenol A  (EXP,ISO)
caffeine  (ISO)
CGP 52608  (ISO)
cyclosporin A  (ISO)
Dibutyl phosphate  (ISO)
dibutyl phthalate  (EXP,ISO)
dicrotophos  (ISO)
dioxygen  (ISO)
dipotassium bis[mu-tartrato(4-)]diantimonate(2-) trihydrate  (ISO)
epoxiconazole  (ISO)
folic acid  (ISO)
FR900359  (ISO)
furan  (EXP)
indole-3-methanol  (EXP)
ivermectin  (ISO)
Lasiocarpine  (ISO)
manganese atom  (ISO)
manganese(0)  (ISO)
manganese(II) chloride  (ISO)
methyl methanesulfonate  (ISO)
motexafin gadolinium  (ISO)
N-nitrosodiethylamine  (EXP)
nickel atom  (ISO)
nicotine  (ISO)
oxybenzone  (ISO)
paracetamol  (EXP,ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
pirinixic acid  (ISO)
potassium chromate  (ISO)
potassium dichromate  (ISO)
quercetin  (ISO)
resveratrol  (ISO)
rotenone  (EXP)
sodium arsenite  (ISO)
testosterone  (ISO)
thapsigargin  (ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
triphenyl phosphate  (ISO)
trovafloxacin  (ISO)
valproic acid  (ISO)
zinc acetate  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

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. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. GOA pipeline RGD automated data pipeline
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:9427542   PMID:18316726   PMID:18719106   PMID:19723507   PMID:19946888   PMID:21396873   PMID:21507896   PMID:22658674   PMID:25023518   PMID:26350214  


Genomics

Comparative Map Data
Hltf
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82104,478,725 - 104,538,531 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl2104,478,772 - 104,538,818 (+)EnsemblGRCr8
mRatBN7.22102,549,724 - 102,609,492 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2102,549,724 - 102,609,327 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx2109,063,231 - 109,122,470 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02107,184,391 - 107,243,629 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02102,148,291 - 102,207,981 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.02104,854,571 - 104,914,338 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2104,854,572 - 104,914,173 (+)Ensemblrn6Rnor6.0
Rnor_5.02124,574,548 - 124,634,389 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.42105,202,487 - 105,262,107 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera297,919,578 - 97,979,241 (+)NCBICelera
RGSC_v3.12105,148,839 - 105,205,382 (+)NCBI
Cytogenetic Map2q24NCBI
HLTF
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh383149,030,063 - 149,086,533 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl3149,030,122 - 149,086,554 (-)Ensemblhg38GRCh38
GRCh373148,747,850 - 148,804,320 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 363150,230,594 - 150,287,031 (-)NCBIBuild 36Build 36hg18NCBI36
Build 343150,230,611 - 150,287,015NCBI
Celera3147,158,179 - 147,214,609 (-)NCBICelera
Cytogenetic Map3q24NCBI
HuRef3146,119,870 - 146,176,257 (-)NCBIHuRef
CHM1_13148,710,947 - 148,767,418 (-)NCBICHM1_1
T2T-CHM13v2.03151,780,777 - 151,837,250 (-)NCBIT2T-CHM13v2.0
Hltf
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39320,111,959 - 20,172,655 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl320,111,975 - 20,172,654 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38320,057,808 - 20,118,491 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl320,057,811 - 20,118,490 (+)Ensemblmm10GRCm38
MGSCv37319,957,811 - 20,018,376 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36320,249,962 - 20,310,527 (+)NCBIMGSCv36mm8
Celera320,047,166 - 20,107,713 (+)NCBICelera
Cytogenetic Map3A2NCBI
cM Map36.15NCBI
Hltf
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554748,412,136 - 8,486,752 (+)Ensembl
ChiLan1.0NW_0049554748,411,912 - 8,488,938 (+)NCBIChiLan1.0ChiLan1.0
HLTF
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22146,925,896 - 146,982,742 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan13146,930,616 - 146,987,472 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v03146,054,371 - 146,111,150 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.13153,632,319 - 153,688,951 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3153,632,319 - 153,688,951 (-)EnsemblpanPan2panpan1.1
HLTF
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12343,868,896 - 43,918,616 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2343,870,939 - 43,918,436 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2343,734,282 - 43,783,354 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02344,498,185 - 44,547,255 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2344,498,189 - 44,547,213 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12344,086,465 - 44,136,026 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02344,134,925 - 44,184,505 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02344,389,026 - 44,438,712 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Hltf
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560283,155,157 - 83,202,437 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365196,531,571 - 6,582,081 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365196,531,549 - 6,579,724 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HLTF
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1389,261,205 - 89,333,011 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11389,261,199 - 89,333,020 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21397,254,690 - 97,326,863 (-)NCBISscrofa10.2Sscrofa10.2susScr3
HLTF
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11541,621,349 - 41,676,185 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1541,621,456 - 41,674,120 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366604114,463,704 - 14,518,550 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Hltf
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473026,257,609 - 26,333,936 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462473026,255,426 - 26,334,176 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Hltf
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v13134,009,970 - 134,070,919 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Hltf
617 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:414
Count of miRNA genes:241
Interacting mature miRNAs:293
Transcripts:ENSRNOT00000064828
Prediction methods:Microtar, 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
1578777Stresp15Stress response QTL 1520.05blood aldosterone amount (VT:0005346)plasma aldosterone level (CMO:0000551)261556902106556902Rat
1298074Bp164Blood pressure QTL 1640.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)244537979205135428Rat
1598865Bp296Blood pressure QTL 2962.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)282947902127947902Rat
1354648Bp239Blood pressure QTL 2390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)267845370229470703Rat
1578772Stresp14Stress response QTL 1450.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)284056790132859658Rat
1354649Kidm17Kidney mass QTL 172.9kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)283465462229820014Rat
10755499Bp389Blood pressure QTL 3892.61arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)220695736231474293Rat
1581576Pur7Proteinuria QTL 70.0001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)280396178220931218Rat
152025242Bw191Body weight QTL 1913.62body mass (VT:0001259)240306867124537199Rat
631198Cm22Cardiac mass QTL 224.30.0008heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)278269809208420281Rat
1302794Stl27Serum triglyceride level QTL 274.40.0001blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)227148328145807373Rat
61465Bp13Blood pressure QTL 133.3blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)278269809104744824Rat
1581569Uae32Urinary albumin excretion QTL 320.0001urine protein amount (VT:0005160)urine albumin excretion rate (CMO:0000757)280396178220931218Rat
2317886Alcrsp23Alcohol response QTL 232.40.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)295142371140142371Rat
70174BpQTLCluster2Blood pressure QTL cluster 24.24arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)241801363104744824Rat
1358901Cm38Cardiac mass QTL 382heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)227148328159440891Rat
2317058Aia13Adjuvant induced arthritis QTL 132.9joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)278269809123269809Rat
1331760Bp206Blood pressure QTL 2063.62454arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)24265106205135428Rat
1358899Kidm23Kidney mass QTL 233.88kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)227148328159440891Rat
1358908Bw49Body weight QTL 493.36body mass (VT:0001259)body weight (CMO:0000012)227148557159440760Rat
1300155Bp174Blood pressure QTL 1744.09arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)244537979112567334Rat
5684990Bmd82Bone mineral density QTL 822.8tibia mineral mass (VT:1000283)bone mineral content (CMO:0001554)261051541105724065Rat
1358910Kidm27Kidney mass QTL 275.77kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)227148328159440891Rat
61355Bp36Blood pressure QTL 362.9blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)27605533104774005Rat
1358911Kidm28Kidney mass QTL 285.42kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)227148328159440891Rat
1358904Cm39Cardiac mass QTL 392.26heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)227148328159440891Rat
1359035Bp276Blood pressure QTL 276arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2100807373145807373Rat
1358887Bw50Body weight QTL 502.39body mass (VT:0001259)body weight (CMO:0000012)227148557159440760Rat
1298080Bp163Blood pressure QTL 1630.02arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)267845182205135428Rat
8662832Vetf7Vascular elastic tissue fragility QTL 73.5aorta elastin amount (VT:0003905)aorta wall extracellular elastin dry weight to aorta wall dry weight ratio (CMO:0002002)283400752223709938Rat
1298085Bp165Blood pressure QTL 1650.0006arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)244537979205135428Rat
2290453Scl55Serum cholesterol level QTL 552.83blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)228652666139067443Rat
2299162Iddm32Insulin dependent diabetes mellitus QTL 322.36blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)293602631145807373Rat
1358894Kidm24Kidney mass QTL 244.03kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)227148328159440891Rat
724534Uae6Urinary albumin excretion QTL 610urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)280396034220931416Rat
61374Edpm2Estrogen-dependent pituitary mass QTL 24.420.86pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)278269809205135428Rat
631500Bp99Blood pressure QTL 992.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)261051883104684275Rat
61392Bp6Blood pressure QTL 67arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)282214549127214549Rat
1358917Cm42Cardiac mass QTL 422.82heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)227148328206613235Rat
5684996Bmd85Bone mineral density QTL 854.70.024tibia mineral mass (VT:1000283)bone mineral density (CMO:0001226)261051541105724065Rat
1358913Cm41Cardiac mass QTL 412.73heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)227148328206613235Rat
2293835Kiddil5Kidney dilation QTL 53.8kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)244537979159440891Rat
1354622Kidm16Kidney mass QTL 163kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)283465462225110681Rat
631266Bp132Blood pressure QTL 1320.0005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)247856345205135428Rat
1558648Smcn1Smooth muscle cell number QTL 10.039blood vessel smooth muscle cell quantity (VT:0010525)aorta smooth muscle cell count per unit vessel length (CMO:0001646)260861391105861391Rat
2293843Kiddil6Kidney dilation QTL 63.1kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)244537979184731399Rat
2306903Bp336Blood pressure QTL 3360.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)238426449111295694Rat
152025206Hrtrt23Heart rate QTL 235.98heart pumping trait (VT:2000009)230219200171802126Rat
1354605Rf48Renal function QTL 482.9blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)276328396209350714Rat
152025204Hrtrt22Heart rate QTL 225.6heart pumping trait (VT:2000009)230219200171802126Rat
61438Cia7Collagen induced arthritis QTL 74.60.0001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)261051541143746880Rat

Markers in Region
RH127313  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22102,608,853 - 102,609,044 (+)MAPPERmRatBN7.2
Rnor_6.02104,913,700 - 104,913,890NCBIRnor6.0
Rnor_5.02124,633,751 - 124,633,941UniSTSRnor5.0
RGSC_v3.42105,261,622 - 105,261,812UniSTSRGSC3.4
Celera297,978,756 - 97,978,946UniSTS
RH 3.4 Map2729.6UniSTS
Cytogenetic Map2q24UniSTS
AU047370  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22102,560,975 - 102,561,122 (+)MAPPERmRatBN7.2
Rnor_6.02104,865,822 - 104,865,972NCBIRnor6.0
Rnor_5.02124,585,798 - 124,585,948UniSTSRnor5.0
RGSC_v3.42105,213,737 - 105,213,887UniSTSRGSC3.4
Celera297,930,809 - 97,930,973UniSTS
Cytogenetic Map2q24UniSTS
RH140388  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26116,967,420 - 116,967,609 (+)MAPPERmRatBN7.2
mRatBN7.22102,609,025 - 102,609,211 (+)MAPPERmRatBN7.2
Rnor_6.02104,913,872 - 104,914,057NCBIRnor6.0
Rnor_6.06121,687,222 - 121,687,410NCBIRnor6.0
Rnor_5.06130,907,420 - 130,907,608UniSTSRnor5.0
Rnor_5.02124,633,923 - 124,634,108UniSTSRnor5.0
RGSC_v3.46121,856,966 - 121,857,154UniSTSRGSC3.4
RGSC_v3.42105,261,794 - 105,261,979UniSTSRGSC3.4
Celera297,978,928 - 97,979,113UniSTS
Celera6114,547,864 - 114,548,052UniSTS
Cytogenetic Map2q24UniSTS


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


Ensembl Acc Id: ENSRNOT00000064828   ⟹   ENSRNOP00000060341
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl2104,478,772 - 104,538,500 (+)Ensembl
mRatBN7.2 Ensembl2102,549,724 - 102,609,327 (+)Ensembl
Rnor_6.0 Ensembl2104,854,572 - 104,914,173 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000090912   ⟹   ENSRNOP00000069487
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl2104,478,773 - 104,538,500 (+)Ensembl
mRatBN7.2 Ensembl2102,549,724 - 102,609,327 (+)Ensembl
Rnor_6.0 Ensembl2104,854,580 - 104,912,627 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000106667   ⟹   ENSRNOP00000092944
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl2104,478,773 - 104,538,500 (+)Ensembl
mRatBN7.2 Ensembl2102,549,724 - 102,609,327 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000131689   ⟹   ENSRNOP00000109996
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl2104,478,773 - 104,538,818 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000138752   ⟹   ENSRNOP00000106820
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl2104,478,773 - 104,538,500 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000169152   ⟹   ENSRNOP00000104300
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl2104,478,772 - 104,538,500 (+)Ensembl
RefSeq Acc Id: NM_001106478   ⟹   NP_001099948
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82104,478,765 - 104,538,378 (+)NCBI
mRatBN7.22102,549,724 - 102,609,339 (+)NCBI
Rnor_6.02104,854,572 - 104,914,185 (+)NCBI
Rnor_5.02124,574,548 - 124,634,389 (+)NCBI
RGSC_v3.42105,202,487 - 105,262,107 (+)RGD
Celera297,919,578 - 97,979,241 (+)RGD
Sequence:
RefSeq Acc Id: XM_006232175   ⟹   XP_006232237
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82104,478,725 - 104,538,531 (+)NCBI
mRatBN7.22102,549,734 - 102,609,492 (+)NCBI
Rnor_6.02104,854,571 - 104,914,338 (+)NCBI
Rnor_5.02124,574,548 - 124,634,389 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006232176   ⟹   XP_006232238
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82104,478,725 - 104,538,531 (+)NCBI
mRatBN7.22102,549,734 - 102,609,492 (+)NCBI
Rnor_6.02104,854,572 - 104,914,338 (+)NCBI
Rnor_5.02124,574,548 - 124,634,389 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006232177   ⟹   XP_006232239
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82104,478,775 - 104,538,531 (+)NCBI
mRatBN7.22102,549,734 - 102,609,492 (+)NCBI
Rnor_6.02104,854,571 - 104,914,338 (+)NCBI
Rnor_5.02124,574,548 - 124,634,389 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039102120   ⟹   XP_038958048
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82104,478,775 - 104,538,531 (+)NCBI
mRatBN7.22102,549,734 - 102,609,492 (+)NCBI
RefSeq Acc Id: NP_001099948   ⟸   NM_001106478
- UniProtKB: D3ZMQ9 (UniProtKB/TrEMBL),   A6IHC7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006232237   ⟸   XM_006232175
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006232239   ⟸   XM_006232177
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_006232238   ⟸   XM_006232176
- Peptide Label: isoform X2
- Sequence:
Ensembl Acc Id: ENSRNOP00000069487   ⟸   ENSRNOT00000090912
Ensembl Acc Id: ENSRNOP00000060341   ⟸   ENSRNOT00000064828
RefSeq Acc Id: XP_038958048   ⟸   XM_039102120
- Peptide Label: isoform X4
Ensembl Acc Id: ENSRNOP00000092944   ⟸   ENSRNOT00000106667
Ensembl Acc Id: ENSRNOP00000109996   ⟸   ENSRNOT00000131689
Ensembl Acc Id: ENSRNOP00000104300   ⟸   ENSRNOT00000169152
Ensembl Acc Id: ENSRNOP00000106820   ⟸   ENSRNOT00000138752
Protein Domains
Helicase ATP-binding   Helicase C-terminal   RING-type

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2JVH5-F1-model_v2 AlphaFold A0A0G2JVH5 1-1003 view protein structure

Transcriptome

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

Promoters
RGD ID:13691262
Promoter ID:EPDNEW_R1782
Type:initiation region
Name:Hltf_1
Description:helicase-like transcription 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_6.02104,854,601 - 104,854,661EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1309031 AgrOrtholog
BioCyc Gene G2FUF-53606 BioCyc
Ensembl Genes ENSRNOG00000000082 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000064828 ENTREZGENE
  ENSRNOT00000064828.5 UniProtKB/TrEMBL
  ENSRNOT00000090912 ENTREZGENE
  ENSRNOT00000090912.3 UniProtKB/TrEMBL
  ENSRNOT00000106667 ENTREZGENE
  ENSRNOT00000106667.2 UniProtKB/TrEMBL
  ENSRNOT00000131689.1 UniProtKB/TrEMBL
  ENSRNOT00000138752.1 UniProtKB/TrEMBL
  ENSRNOT00000169152.1 UniProtKB/TrEMBL
Gene3D-CATH 3.30.40.10 UniProtKB/TrEMBL
  3.30.70.2330 UniProtKB/TrEMBL
  3.40.50.10810 UniProtKB/TrEMBL
  3.40.50.300 UniProtKB/TrEMBL
InterPro DEAD-like_helicase UniProtKB/TrEMBL
  Helicase_C UniProtKB/TrEMBL
  HIP116_Rad5p_N UniProtKB/TrEMBL
  P-loop_NTPase UniProtKB/TrEMBL
  SNF2-like_sf UniProtKB/TrEMBL
  SNF2/RAD54-like_C UniProtKB/TrEMBL
  SNF2_N UniProtKB/TrEMBL
  SNF2_RAD54_helicase_TF UniProtKB/TrEMBL
  Znf_RING UniProtKB/TrEMBL
  Znf_RING/FYVE/PHD UniProtKB/TrEMBL
  Znf_RING_CS UniProtKB/TrEMBL
KEGG Report rno:295568 UniProtKB/TrEMBL
NCBI Gene 295568 ENTREZGENE
PANTHER HELICASE-LIKE TRANSCRIPTION FACTOR UniProtKB/TrEMBL
  TRANSCRIPTION TERMINATION FACTOR 2-RELATED UniProtKB/TrEMBL
Pfam Helicase_C UniProtKB/TrEMBL
  HIRAN UniProtKB/TrEMBL
  SNF2_N UniProtKB/TrEMBL
  zf-C3HC4_2 UniProtKB/TrEMBL
PhenoGen Hltf PhenoGen
PROSITE HELICASE_ATP_BIND_1 UniProtKB/TrEMBL
  HELICASE_CTER UniProtKB/TrEMBL
  ZF_RING_1 UniProtKB/TrEMBL
  ZF_RING_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000000082 RatGTEx
SMART DEXDc UniProtKB/TrEMBL
  HELICc UniProtKB/TrEMBL
  HIRAN UniProtKB/TrEMBL
  RING UniProtKB/TrEMBL
Superfamily-SCOP RING/U-box UniProtKB/TrEMBL
  SSF52540 UniProtKB/TrEMBL
UniProt A0A0G2JVH5 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6AF43 ENTREZGENE, UniProtKB/TrEMBL
  A0ABK0L474_RAT UniProtKB/TrEMBL
  A0ABK0LGM9_RAT UniProtKB/TrEMBL
  A0ABK0LPE9_RAT UniProtKB/TrEMBL
  A6IHC7 ENTREZGENE, UniProtKB/TrEMBL
  D3ZMQ9 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-07 Hltf  helicase-like transcription factor  Smarca3_predicted  SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 3 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-12 Smarca3_predicted  SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 3 (predicted)      Symbol and Name status set to approved 70820 APPROVED