EuRBPDB

Basic Information
Cancer Related Information

Description

RBPome

PRI

Expression

Transcripts

Gene Model

Phenotypes

GWAS

PPI

Gene Ontology

Description

Ensembl ID: ENSG00000071794 (Gene tree)
Gene ID: 6596
Gene Symbol: HLTF
Alias: HIP116A|HLTF1|RNF80|SNF2L3|SMARCA3
Full Name: helicase like transcription factor
Gene Type: protein_coding
Species: Homo_sapiens
Status: confidence
Strand: Minus strand
Length: 56,438 bases
Position: chr3:149,030,117-149,086,554
Accession: 11099
RBP type: non-canonical RBP
Summary: This gene encodes a member of the SWI/SNF family. Members of this family have helicase and ATPase activities and are thought to regulate transcription of certain genes by altering the chromatin structure around those genes. The encoded protein contains a RING finger DNA binding motif. Two transcript variants encoding the same protein have been found for this gene. However, use of an alternative translation start site produces an isoform that is truncated at the N-terminus compared to the full-length protein. [provided by RefSeq, Jul 2008]

RNA binding proteome (RBPome)

PID	Title	Method	Time	Author	Doi
22658674	Insights into RNA biology from an atlas of mammalian mRNA-binding proteins	RIC & Hela	2012 May 31	Castello A	DOI: 10.1016/j.cell.2012.04.031
30528433	The Human RNA-Binding Proteome and Its Dynamics during Translational Arrest	XRNAX & Hela	2018 Dec 6	Trendel J	DOI: 10.1016/j.cell.2018.11.004
30528433	The Human RNA-Binding Proteome and Its Dynamics during Translational Arrest	XRNAX & MCF7	2018 Dec 6	Trendel J	DOI: 10.1016/j.cell.2018.11.004

Protein-RNA interaction（RNA-Binding Site）

Click here to download all RNA binding sites

Expression

Transcripts

Transcript ID	Name	Length	RefSeq ID	Protein ID	Length	RefSeq ID	UniportKB ID
ENST00000493881	HLTF-207	461	-	-	- (aa)	-	-
ENST00000465259	HLTF-203	5306	XM_011513093	ENSP00000420745	1008 (aa)	XP_011511395	A0A0C4DGA6
ENST00000310053	HLTF-201	5317	XM_011513091	ENSP00000308944	1009 (aa)	XP_011511393	Q14527
ENST00000494055	HLTF-208	3633	-	ENSP00000420429	1009 (aa)	-	Q14527
ENST00000497427	HLTF-209	570	-	-	- (aa)	-	-
ENST00000472830	HLTF-205	533	-	-	- (aa)	-	-
ENST00000467858	HLTF-204	1276	-	ENSP00000420106	425 (aa)	-	H7C5K0
ENST00000392912	HLTF-202	3896	-	ENSP00000376644	1009 (aa)	-	Q14527
ENST00000481663	HLTF-206	501	-	-	- (aa)	-	-

Gene Model

Click here to download ENSG00000071794's gene model file

Phenotypes

ensgID	Trait	pValue	Pubmed ID
ENSG00000071794	Platelet Function Tests	2.0488300E-005	-
ENSG00000071794	Polychlorinated Biphenyls	2E-7	25839716

GWAS

ensgID	SNP	Chromosome	Position	SNP-risk	Trait	PubmedID	95% CI	Or or BEAT	EFO ID
ENSG00000071794	rs6764352	3	149039038	?	Polychlorinated biphenyl levels	25839716	[0.52-1.1] unit increase	0.81	EFO_0007042

Protein-Protein Interaction (PPI)

Clik here to download ENSG00000071794's network

* RBP PPI network refers to all genes directly bind to RBP

Gene Ontology

Go ID	Go_term	PubmedID	Evidence	Category
GO:0000978	RNA polymerase II proximal promoter sequence-specific DNA binding	-	IEA	Function
GO:0001228	DNA-binding transcription activator activity, RNA polymerase II-specific	-	IEA	Function
GO:0003677	DNA binding	7876228.	TAS	Function
GO:0003723	RNA binding	22658674.	HDA	Function
GO:0004386	helicase activity	-	IEA	Function
GO:0005515	protein binding	10391891.18316726.18719106.23415230.	IPI	Function
GO:0005524	ATP binding	-	IEA	Function
GO:0005634	nucleus	-	IDA	Component
GO:0005654	nucleoplasm	-	IDA	Component
GO:0005654	nucleoplasm	-	TAS	Component
GO:0005730	nucleolus	-	IEA	Component
GO:0005737	cytoplasm	-	IEA	Component
GO:0006325	chromatin organization	-	IEA	Process
GO:0006355	regulation of transcription, DNA-templated	7876228.	TAS	Process
GO:0008270	zinc ion binding	-	IEA	Function
GO:0016020	membrane	19946888.	HDA	Component
GO:0016567	protein ubiquitination	-	IEA	Process
GO:0016567	protein ubiquitination	-	TAS	Process
GO:0016887	ATPase activity	-	IEA	Function
GO:0031625	ubiquitin protein ligase binding	25023518.	IDA	Function
GO:0045944	positive regulation of transcription by RNA polymerase II	-	IEA	Process
GO:0061630	ubiquitin protein ligase activity	18316726.18719106.19723507.21396873.26350214.	EXP	Function

Cancer associated literatures

PID	Title	Article	Time	Author	Doi
30320371	HLTF suppresses the migration and invasion of colorectal cancer cells via TGFβ/SMAD signaling in vitro.	Int J Oncol	2018 Dec	Liu L	doi: 10.3892/ijo.2018.4591
19948885	Role of double-stranded DNA translocase activity of human HLTF in replication of damaged DNA.	Mol Cell Biol	2010 Feb	Blasty??k A	doi: 10.1128/MCB.00863-09
18034322	The helicase-like transcription factor and its implication in cancer progression.	Cell Mol Life Sci	2008 Feb	Debauve G	-
20535496	Helicase-like transcription factor confers radiation resistance in cervical cancer through enhancing the DNA damage repair capacity.	J Cancer Res Clin Oncol	2011 Apr	Cho S	doi: 10.1007/s00432-010-0925-5
11904375	HLTF gene silencing in human colon cancer.	Proc Natl Acad Sci U S A	2002 Apr 2	Moinova HR	-
12766908	Inactivation of helicase-like transcription factor by promoter hypermethylation in human gastric cancer.	Mol Carcinog	2003 Jun	Leung WK	-
20388495	CHFR functions as a ubiquitin ligase for HLTF to regulate its stability and functions.	Biochem Biophys Res Commun	2010 May 14	Kim JM	doi: 10.1016/j.bbrc.2010.04.052

Differential Expression

Expression in 33 cancers

Mutations

Cancer	Chr	Position	Mutation Type	dbSNP	Protein-change	Allele Freq
ACC	chr3	149046086	Missense_Mutation	novel	I689T	0.71
ACC	chr3	149046159	Missense_Mutation	novel	I665F	0.69
BLCA	chr3	149059753	Missense_Mutation	novel	S447F	0.22
BLCA	chr3	149040117	Missense_Mutation	novel	E806K	0.22
BLCA	chr3	149041492	Missense_Mutation	novel	Q792K	0.5
BLCA	chr3	149055333	Missense_Mutation	NA	I481M	0.13
BLCA	chr3	149032140	3'UTR	novel		0.26
BRCA	chr3	149032250	Missense_Mutation	NA	I1000M	0.29
BRCA	chr3	149076017	In_Frame_Del	NA	Q86del	0.33
BRCA	chr3	149068278	Missense_Mutation	NA	L318V	0.09
BRCA	chr3	149071250	Splice_Site	novel	X298_splice	0.11
BRCA	chr3	149055398	Missense_Mutation	novel	A460S	0.32
BRCA	chr3	149032271	Silent	rs548576604	D993D	0.14
BRCA	chr3	149064844	Missense_Mutation	rs746982688	S338C	0.15
BRCA	chr3	149046122	Missense_Mutation	rs146224624	I677T	0.45
BRCA	chr3	149086349	5'UTR	novel		0.12
CESC	chr3	149031295	3'UTR	novel		0.14
CESC	chr3	149031296	3'UTR	novel		0.15
CESC	chr3	149031414	3'UTR	novel		0.47
CESC	chr3	149031526	3'UTR	novel		0.21
CESC	chr3	149032241	Missense_Mutation	novel	I1003M	0.11
CESC	chr3	149040092	Missense_Mutation	novel	P814L	0.39
CESC	chr3	149031273	3'UTR	rs552704676		0.29
CESC	chr3	149071351	Silent	NA	E265E	0.1
CESC	chr3	149039167	Nonsense_Mutation	NA	S893*	0.53
CESC	chr3	149039149	Frame_Shift_Del	novel	*N899Tfs9**	0.27
CESC	chr3	149063440	Missense_Mutation	rs773811328	R384H	0.59
CESC	chr3	149055322	Missense_Mutation	NA	S485F	0.24
CESC	chr3	149071303	In_Frame_Del	novel	K281del	0.06
CESC	chr3	149060820	Nonsense_Mutation	novel	S400*	0.12
COAD	chr3	149039068	Missense_Mutation	rs747207862	R926Q	0.31
COAD	chr3	149041569	Missense_Mutation	NA	S766Y	0.36
COAD	chr3	149032082	3'UTR	novel		0.48
COAD	chr3	149071282	Silent	NA	H288H	0.29
COAD	chr3	149075995	Missense_Mutation	NA	D94G	0.15
COAD	chr3	149041638	Missense_Mutation	novel	K743R	0.17
COAD	chr3	149071371	Nonsense_Mutation	novel	E259*	0.09
COAD	chr3	149041641	Missense_Mutation	NA	K742T	0.39
COAD	chr3	149060816	Missense_Mutation	NA	E401D	0.32
COAD	chr3	149039189	Missense_Mutation	NA	A886T	0.14
COAD	chr3	149048931	Missense_Mutation	NA	R563Q	0.22
COAD	chr3	149074300	Frame_Shift_Ins	novel	*M148Ifs3**	0.03
COAD	chr3	149048062	Missense_Mutation	novel	R620C	0.15
COAD	chr3	149071346	Missense_Mutation	rs527812739	R267Q	0.21
ESCA	chr3	149041654	Missense_Mutation	novel	E738Q	0.17
ESCA	chr3	149068302	Frame_Shift_Del	novel	*T310Pfs19**	0.06
GBM	chr3	149048915	Missense_Mutation	novel	Q568H	0.1
GBM	chr3	149086328	Nonsense_Mutation	NA	W3*	0.16
GBM	chr3	149050318	Missense_Mutation	NA	G511S	0.29
GBM	chr3	149071316	Missense_Mutation	novel	N277T	0.2
GBM	chr3	149084824	Nonsense_Mutation	NA	S29*	0.32
HNSC	chr3	149073267	Silent	novel	Y195Y	0.77
HNSC	chr3	149060782	Missense_Mutation	novel	K413Q	0.35
HNSC	chr3	149074231	Missense_Mutation	novel	L171F	0.18
HNSC	chr3	149068269	Missense_Mutation	novel	E321K	0.34
HNSC	chr3	149050312	Missense_Mutation	novel	D513H	0.05
HNSC	chr3	149039224	Missense_Mutation	novel	S874C	0.14
HNSC	chr3	149063484	Missense_Mutation	novel	I369M	0.3
LGG	chr3	149039119	Missense_Mutation	novel	L909R	0.22
LGG	chr3	149074309	Silent	NA	P145P	0.6
LGG	chr3	149032289	Silent	novel	T987T	0.31
LGG	chr3	149039128	Missense_Mutation	novel	T906I	0.29
LGG	chr3	149040069	Nonsense_Mutation	novel	E822*	0.22
LGG	chr3	149041534	Missense_Mutation	rs761727214	V778I	0.46
LGG	chr3	149063522	Missense_Mutation	rs535340588	A357T	0.31
LGG	chr3	149071648	Nonsense_Mutation	novel	E213*	0.59
LGG	chr3	149060786	Frame_Shift_Ins	novel	*K411Nfs3**	0.14
LGG	chr3	149060787	Frame_Shift_Ins	novel	*K411Rfs14**	0.14
LUAD	chr3	149048979	Missense_Mutation	NA	H547L	0.16
LUAD	chr3	149041523	Missense_Mutation	novel	K781N	0.14
LUAD	chr3	149073302	Missense_Mutation	novel	S184C	0.06
LUAD	chr3	149032323	Missense_Mutation	novel	K976R	0.13
LUAD	chr3	149050254	Missense_Mutation	novel	N532S	0.17
LUAD	chr3	149042275	Silent	novel	G696G	0.23
LUAD	chr3	149046258	Missense_Mutation	rs371233960	R632C	0.36
LUAD	chr3	149041597	Missense_Mutation	novel	D757H	0.18
LUAD	chr3	149032290	Missense_Mutation	rs144381721	T987I	0.17
LUAD	chr3	149084865	Missense_Mutation	novel	Q15H	0.29
LUAD	chr3	149084721	Missense_Mutation	novel	L63F	0.11
LUAD	chr3	149071420	Silent	NA	P242P	0.41
LUAD	chr3	149040035	Missense_Mutation	novel	S833L	0.11
LUSC	chr3	149068251	Silent	novel	L327L	0.22
LUSC	chr3	149084849	Missense_Mutation	novel	V21F	0.18
LUSC	chr3	149071277	Missense_Mutation	novel	G290V	0.17
LUSC	chr3	149068336	Splice_Site	novel	X299_splice	0.37
LUSC	chr3	149071385	Missense_Mutation	novel	R254P	0.28
LUSC	chr3	149071397	Nonsense_Mutation	NA	W250*	0.37
LUSC	chr3	149050365	Missense_Mutation	novel	G495V	0.53
LUSC	chr3	149068278	Missense_Mutation	NA	L318V	0.07
LUSC	chr3	149032114	3'UTR	novel		0.35
LUSC	chr3	149040081	Missense_Mutation	NA	A818T	0.19
LUSC	chr3	149059793	Missense_Mutation	NA	V434F	0.36
LUSC	chr3	149074349	Splice_Site	novel	X132_splice	0.21
LUSC	chr3	149060792	Silent	rs137985485	P409P	0.27
LUSC	chr3	149071277	Missense_Mutation	rs768864078	G290E	0.25
LUSC	chr3	149075910	Silent	rs753530650	I122I	0.07
LUSC	chr3	149050284	Missense_Mutation	novel	S522L	0.09
LUSC	chr3	149042190	Missense_Mutation	NA	A725S	0.25
OV	chr3	149084839	Missense_Mutation	NA	N24S	0.46
OV	chr3	149039653	Frame_Shift_Ins	novel	*K848Tfs25**	0.08
OV	chr3	149041572	Missense_Mutation	novel	D765G	0.04
PRAD	chr3	149075971	Missense_Mutation	novel	N102S	0.07
PRAD	chr3	149042218	Silent	NA	I715I	0.27
PRAD	chr3	149048155	Missense_Mutation	novel	I589V	0.46
PRAD	chr3	149059765	Missense_Mutation	novel	A443G	0.35
READ	chr3	149071395	Missense_Mutation	novel	M251L	0.04
READ	chr3	149060829	Missense_Mutation	NA	S397N	0.19
READ	chr3	149074281	Nonsense_Mutation	NA	E155*	0.38
READ	chr3	149039681	Missense_Mutation	novel	M839L	0.37
READ	chr3	149050354	Missense_Mutation	novel	K499Q	0.35
READ	chr3	149071648	Missense_Mutation	NA	E213K	0.33
READ	chr3	149039181	Missense_Mutation	NA	K888N	0.23
SARC	chr3	149074323	Missense_Mutation	novel	A141T	0.29
SKCM	chr3	149063458	Missense_Mutation	novel	S378L	0.29
SKCM	chr3	149074341	Missense_Mutation	NA	P135S	0.26
SKCM	chr3	149046221	Missense_Mutation	novel	R644K	0.31
SKCM	chr3	149039194	Missense_Mutation	NA	S884F	0.44
SKCM	chr3	149084806	Missense_Mutation	novel	P35L	0.28
SKCM	chr3	149042171	Missense_Mutation	NA	P731L	0.16
SKCM	chr3	149074262	Missense_Mutation	NA	S161L	0.26
SKCM	chr3	149075949	Silent	NA	G109G	0.45
SKCM	chr3	149074274	Missense_Mutation	NA	R157K	0.47
SKCM	chr3	149041640	Silent	NA	K742K	0.37
SKCM	chr3	149039193	Silent	NA	S884S	0.24
STAD	chr3	149071434	Missense_Mutation	NA	T238P	0.4
STAD	chr3	149068239	Splice_Site	novel	X330_splice	0.08
STAD	chr3	149071347	Nonsense_Mutation	rs770061848	R267*	0.34
STAD	chr3	149046092	Missense_Mutation	novel	A687G	0.41
STAD	chr3	149046170	Missense_Mutation	NA	R661H	0.38
STAD	chr3	149071601	Frame_Shift_Ins	novel	*H228Qfs2**	0.18
STAD	chr3	149084738	Missense_Mutation	NA	V58I	0.27
STAD	chr3	149063440	Missense_Mutation	rs773811328	R384H	0.16
UCEC	chr3	149071601	Silent	NA	H228H	0.3
UCEC	chr3	149040108	Missense_Mutation	novel	L809V	0.05
UCEC	chr3	149041499	Silent	NA	Q789Q	0.37
UCEC	chr3	149048931	Missense_Mutation	NA	R563Q	0.34
UCEC	chr3	149084798	Nonsense_Mutation	NA	E38*	0.32
UCEC	chr3	149039068	Missense_Mutation	rs747207862	R926Q	0.22
UCEC	chr3	149040126	Missense_Mutation	NA	D803Y	0.28
UCEC	chr3	149075990	Missense_Mutation	NA	N96H	0.31
UCEC	chr3	149084720	Silent	NA	R64R	0.31
UCEC	chr3	149032365	Missense_Mutation	novel	V962A	0.23
UCEC	chr3	149048880	Missense_Mutation	novel	R580I	0.36
UCEC	chr3	149068255	Missense_Mutation	NA	K325N	0.39
UCEC	chr3	149064795	Silent	novel	S354S	0.15
UCEC	chr3	149074270	Silent	novel	K158K	0.57
UCEC	chr3	149032254	Missense_Mutation	novel	K999T	0.29
UCEC	chr3	149046206	Missense_Mutation	NA	K649T	0.32
UCEC	chr3	149060650	Missense_Mutation	NA	R426S	0.11
UCEC	chr3	149071356	Missense_Mutation	rs140551459	W264R	0.44
UCEC	chr3	149084688	Silent	novel	T74T	0.48
UCEC	chr3	149032155	3'UTR	novel		0.22
UCEC	chr3	149050344	Missense_Mutation	novel	V502A	0.22
UCEC	chr3	149071346	Missense_Mutation	rs527812739	R267Q	0.23
UCEC	chr3	149031395	3'UTR	novel		0.43
UCEC	chr3	149034991	Missense_Mutation	NA	N935T	0.32
UCEC	chr3	149063523	Splice_Region	rs547442134	D356D	0.16
UCEC	chr3	149031395	3'UTR	novel		0.6
UCEC	chr3	149039690	Missense_Mutation	novel	N836D	0.37
UCEC	chr3	149041644	Missense_Mutation	novel	R741I	0.26
UCEC	chr3	149071371	Nonsense_Mutation	novel	E259*	0.18
UCEC	chr3	149050308	Missense_Mutation	novel	R514H	0.21
UCEC	chr3	149084744	Missense_Mutation	novel	D56N	0.29
UCEC	chr3	149031379	3'UTR	rs192804350		0.38
UCEC	chr3	149075888	Missense_Mutation	novel	I130L	0.34
UCEC	chr3	149059719	Missense_Mutation	novel	K458N	0.52
UCEC	chr3	149071341	Missense_Mutation	rs80336605	D269N	0.38
UCEC	chr3	149084761	Missense_Mutation	novel	T50S	0.27
UCEC	chr3	149084882	Missense_Mutation	NA	V10I	0.12
UCEC	chr3	149071648	Nonsense_Mutation	novel	E213*	0.44
UCEC	chr3	149086319	Missense_Mutation	novel	K6N	0.39
UCEC	chr3	149032224	Missense_Mutation	novel	L1009S	0.14
UCEC	chr3	149086440	5'UTR	novel		0.38
UCEC	chr3	149041506	Missense_Mutation	novel	V787A	0.33
UCEC	chr3	149048086	Nonsense_Mutation	novel	E612*	0.48
UCEC	chr3	149060792	Silent	rs137985485	P409P	0.4
UCEC	chr3	149040078	Missense_Mutation	rs372238111	R819C	0.29
UCEC	chr3	149068291	Silent	NA	H313H	0.11
UCEC	chr3	149032310	Frame_Shift_Del	novel	*L980Rfs8**	0.25
UCEC	chr3	149032159	3'UTR	novel		0.49
UCEC	chr3	149071641	Missense_Mutation	novel	D215G	0.35
UCEC	chr3	149031395	3'UTR	novel		0.33
UCEC	chr3	149046138	Missense_Mutation	novel	D672Y	0.54
UCEC	chr3	149040038	Missense_Mutation	rs554839264	S832N	0.13
UCEC	chr3	149032172	3'UTR	novel		0.1
UCEC	chr3	149046206	Missense_Mutation	NA	K649T	0.2
UCEC	chr3	149075991	Silent	novel	K95K	0.08
UCEC	chr3	149031395	3'UTR	novel		0.34
UCEC	chr3	149039686	Missense_Mutation	NA	A837V	0.38
UCEC	chr3	149048925	Missense_Mutation	novel	P565L	0.05
UCEC	chr3	149039622	Silent	novel	S858S	0.39
UCEC	chr3	149075953	Missense_Mutation	rs781449206	V108A	0.35
UCEC	chr3	149032230	Missense_Mutation	novel	I1007T	0.5
UCEC	chr3	149071430	Missense_Mutation	novel	P239Q	0.33
UCEC	chr3	149032054	3'UTR	novel		0.46
UCEC	chr3	149064840	Missense_Mutation	NA	M339I	0.24
UCEC	chr3	149040065	Missense_Mutation	NA	K823T	0.2
UCEC	chr3	149071413	Missense_Mutation	novel	K245Q	0.05
UCEC	chr3	149075991	Missense_Mutation	NA	K95N	0.34
UCEC	chr3	149039602	Missense_Mutation	novel	S865F	0.14
UCEC	chr3	149041587	Missense_Mutation	novel	C760Y	0.18
UCEC	chr3	149071316	Missense_Mutation	NA	N277I	0.38
UCEC	chr3	149039679	Missense_Mutation	NA	M839I	0.4
UCEC	chr3	149063522	Missense_Mutation	rs535340588	A357T	0.27
UCEC	chr3	149063440	Missense_Mutation	rs773811328	R384H	0.26
UCEC	chr3	149068311	Missense_Mutation	novel	V307L	0.45
UCEC	chr3	149073240	Missense_Mutation	novel	Q204H	0.34
UCS	chr3	149039181	Missense_Mutation	NA	K888N	0.31
UCS	chr3	149050333	Missense_Mutation	novel	F506V	0.33

Copy Number Variations (CNVs)

Cancer	Type	Freq	Q-value
KIRC	DEL	0.1155	0.11092
KIRP	AMP	0.3125	0.15981
PAAD	AMP	0.0978	0.16151

Survival Analysis

Cancer	P-value	Q-value
SARC	0.0001	Kaplan-Meier Survival Analysis
SKCM	0.0047	Kaplan-Meier Survival Analysis
PRAD	0.0084	Kaplan-Meier Survival Analysis
BRCA	0.028	Kaplan-Meier Survival Analysis
PCPG	0.014	Kaplan-Meier Survival Analysis
BLCA	0.04	Kaplan-Meier Survival Analysis
CESC	0.029	Kaplan-Meier Survival Analysis
KICH	0.0015	Kaplan-Meier Survival Analysis
UCEC	0.002	Kaplan-Meier Survival Analysis
LIHC	0.0024	Kaplan-Meier Survival Analysis

Drugs

EuRBPDB

Description

RBPome

PRI

Expression

Transcripts

Gene Model

Phenotypes

GWAS

PPI

Gene Ontology

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Eesembl ID

Cell lines and drugs in GSE70138 or GSE92742