Variant report

Variant	rs1781735
Chromosome Location	chr6:38672079-38672080
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:1)
CpG islands
(count:61)
Chromatin interactive
region (count:3)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:1 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	EP300	chr6:38672008-38672092	K562	blood:	n/a	n/a

(count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chr6:38672050-38672100	HepG2	liver:	n/a
2	chr6:38672050-38672100	HCF	heart:	n/a
3	chr6:38672050-38672100	HMEC	breast:	n/a
4	chr6:38672050-38672100	PFSK-1	brain:	n/a
5	chr6:38672050-38672100	HL-60	blood:	n/a
6	chr6:38672050-38672100	A549	lung:	n/a
7	chr6:38672050-38672100	U87	brain:	n/a
8	chr6:38672050-38672100	NB4	blood:	n/a
9	chr6:38672050-38672100	MCF-7	breast:	n/a
10	chr6:38672050-38672100	Caco-2	colon:	n/a
11	chr6:38672050-38672100	NH-A	brain:	n/a
12	chr6:38672050-38672100	HPAEpiC	pulmonary alveolar:	n/a
13	chr6:38672050-38672100	AG10803	skin:	n/a
14	chr6:38672050-38672100	T-47D	breast:	n/a
15	chr6:38672050-38672100	HCM	heart:	n/a
16	chr6:38672050-38672100	BE2_C	brain:	n/a
17	chr6:38672050-38672100	CMK	blood:	n/a
18	chr6:38672050-38672100	AG04450	lung:	fetal
19	chr6:38672050-38672100	AoSMC	blood vessel:	n/a
20	chr6:38672050-38672100	NT2-D1	testis:	n/a
21	chr6:38672050-38672100	Hela-S3	cervix:	n/a
22	chr6:38672050-38672100	BJ	skin:	n/a
23	chr6:38672050-38672100	NHDF-neo	bronchial:	n/a
24	chr6:38672050-38672100	AG04449	skin:	fetal
25	chr6:38672050-38672100	ECC-1	luminal epithelium:	n/a
26	chr6:38672050-38672100	HEEpiC	esophagus:	n/a
27	chr6:38672050-38672100	HAEpiC	amniotic membrane:	n/a
28	chr6:38672050-38672100	Jurkat	blood:	n/a
29	chr6:38672050-38672100	H1-hESC	embryonic stem cell:	embryo
30	chr6:38672050-38672100	HUVEC	blood vessel:	n/a
31	chr6:38672050-38672100	LNCaP	prostate:	n/a
32	chr6:38672050-38672100	RPTEC	kidney:	n/a
33	chr6:38672050-38672100	SK-N-SH_RA	brain:	n/a
34	chr6:38672050-38672100	ProgFib	skin:	n/a
35	chr6:38672050-38672100	PrEC	prostate:	n/a
36	chr6:38672050-38672100	SKMC	muscle:	n/a
37	chr6:38672050-38672100	HRE	kidney:	n/a
38	chr6:38672050-38672100	GM12892	blood:	n/a
39	chr6:38672050-38672100	AG09319	gingival:	n/a
40	chr6:38672050-38672100	HCPEpiC	choroid plexus:	n/a
41	chr6:38672050-38672100	HIPEpiC	eye:	n/a
42	chr6:38672050-38672100	ovcar-3	ovarian:	n/a
43	chr6:38672050-38672100	SK-N-MC	brain:	n/a
44	chr6:38672050-38672100	K562	blood:	n/a
45	chr6:38672050-38672100	HRPEpiC	eye:	n/a
46	chr6:38672050-38672100	SK-N-SH	brain:	n/a
47	chr6:38672050-38672100	HCT-116	colon:	n/a
48	chr6:38672050-38672100	HEK293	kidney:	embryo
49	chr6:38672050-38672100	SAEC	small airway:	n/a
50	chr6:38672050-38672100	PANC-1	pancreas:	n/a

(count:3 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:38670885..38672648-chr6:38689794..38692471,2	K562	blood:
2	chr6:38671655..38673667-chr6:38677142..38679231,2	MCF-7	breast:
3	chr6:38671995..38673774-chr6:38684927..38687548,2	K562	blood:

No data

Variant related genes	Relation type
GLO1	TF binding region
GLO1	CpG island
ENSG00000124721	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs10447398	0.95[YRI][hapmap]
rs1049346	0.88[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1615887	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1621788	0.96[CEU][hapmap];0.82[CHD][hapmap];0.82[GIH][hapmap];0.92[MEX][hapmap];0.87[TSI][hapmap];0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1699012	0.91[CHB][hapmap];1.00[CHD][hapmap];0.91[JPT][hapmap];0.87[ASN][1000 genomes]
rs1781715	0.96[ASN][1000 genomes]
rs1781717	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1781719	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1781733	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs2490026	0.96[CEU][hapmap];0.83[CHB][hapmap];0.87[JPT][hapmap];0.83[TSI][hapmap];0.88[EUR][1000 genomes]
rs2490027	0.86[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs2736655	0.83[CHD][hapmap];0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1021991	chr6:37893949-38738720	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv885817	chr6:38036420-39019503	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
3	esv2758049	chr6:38588969-38711085	Strong transcription Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
4	esv2759421	chr6:38588969-38711085	Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
5	nsv427754	chr6:38588969-38711085	Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Bivalent Enhancer Weak transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
6	nsv428144	chr6:38588969-38711085	Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
7	nsv830642	chr6:38645056-38800657	Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs1781735	GLO1	cis	parietal	SCAN
rs1781735	GLO1	cis	cerebellum	SCAN

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:38671000-38672400	Enhancers	Fetal Stomach	stomach
2	chr6:38671200-38672200	Enhancers	Fetal Heart	heart
3	chr6:38671400-38672200	Weak transcription	Placenta	Placenta
4	chr6:38671400-38675000	Weak transcription	Right Atrium	heart
5	chr6:38671400-38676000	Weak transcription	HUVEC	blood vessel
6	chr6:38672000-38672200	Enhancers	Fetal Muscle Leg	muscle
7	chr6:38672000-38672400	Enhancers	K562	blood
8	chr6:38672000-38678400	Weak transcription	Fetal Kidney	kidney

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links