Variant report

Variant	rs550725554
Chromosome Location	chr6:34665332-34665333
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:58)
CpG islands
(count:0)
Chromatin interactive
region (count:14)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:58 , 50 per page) page: 1 2

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr6:34664504-34666032	K562	blood:	n/a	n/a
2	CREB1	chr6:34663844-34665332	HepG2	liver:	n/a	chr6:34664726-34664739
3	CREB1	chr6:34664362-34665437	K562	blood:	n/a	chr6:34664726-34664739
4	RCOR1	chr6:34664100-34666097	K562	blood:	n/a	n/a
5	POLR2A	chr6:34664283-34665463	K562	blood:	n/a	n/a
6	CREB1	chr6:34664102-34665381	HepG2	liver:	n/a	chr6:34664726-34664739
7	POLR2A	chr6:34664345-34666027	K562	blood:	n/a	n/a
8	ATF1	chr6:34664551-34665370	K562	blood:	n/a	chr6:34664738-34664752
9	CREB1	chr6:34664236-34665544	GM12878	blood:	n/a	chr6:34664726-34664739
10	MAX	chr6:34664161-34665372	A549	lung:	n/a	n/a
11	CEBPB	chr6:34664623-34665447	A549	lung:	n/a	chr6:34665129-34665140
12	CEBPB	chr6:34664560-34665338	K562	blood:	n/a	chr6:34665129-34665140
13	MAFK	chr6:34664771-34665499	K562	blood:	n/a	n/a
14	POLR2A	chr6:34664241-34665404	K562	blood:	n/a	n/a
15	ARID3A	chr6:34664800-34665428	K562	blood:	n/a	n/a
16	HCFC1	chr6:34664225-34665387	K562	blood:	n/a	n/a
17	POLR2A	chr6:34664012-34666018	K562	blood:	n/a	n/a
18	EP300	chr6:34664596-34666206	K562	blood:	n/a	n/a
19	CHD1	chr6:34662884-34665377	IMR90	lung:	n/a	n/a
20	TBL1XR1	chr6:34664580-34665333	K562	blood:	n/a	n/a
21	POLR2A	chr6:34664700-34665430	K562	blood:	n/a	n/a
22	POLR2A	chr6:34664192-34665336	GM10847	blood:	n/a	n/a
23	POLR2A	chr6:34664272-34665656	GM12878	blood:	n/a	n/a
24	IRF1	chr6:34664606-34665381	K562	blood:	n/a	chr6:34664806-34664820 chr6:34664897-34664913
25	POLR2A	chr6:34664221-34665999	K562	blood:	n/a	n/a
26	JUN	chr6:34664595-34666170	K562	blood:	n/a	chr6:34666143-34666153 chr6:34664806-34664815
27	POLR2A	chr6:34664025-34665390	HepG2	liver:	n/a	n/a
28	NR2F2	chr6:34663078-34665516	K562	blood:	n/a	n/a
29	BHLHE40	chr6:34664221-34665410	K562	blood:	n/a	n/a
30	POLR2A	chr6:34663999-34665448	Raji	blood:	n/a	n/a
31	POLR2A	chr6:34664198-34666002	GM12891	blood:	n/a	n/a
32	TEAD4	chr6:34664573-34666092	K562	blood:	n/a	n/a
33	POLR2A	chr6:34664107-34665460	K562	blood:	n/a	n/a
34	JUN	chr6:34663879-34666687	K562	blood:	n/a	chr6:34664457-34664466 chr6:34666143-34666153 chr6:34664806-34664815
35	CEBPD	chr6:34664273-34665366	K562	blood:	n/a	n/a
36	TBL1XR1	chr6:34664623-34665358	K562	blood:	n/a	n/a
37	POLR2A	chr6:34664162-34665869	GM18505	blood:	n/a	n/a
38	PML	chr6:34664550-34665403	K562	blood:	n/a	n/a
39	MYBL2	chr6:34664053-34665442	HepG2	liver:	n/a	n/a
40	POLR2A	chr6:34663689-34665379	PBDE	blood:	n/a	n/a
41	MXI1	chr6:34663803-34665339	IMR90	lung:	n/a	n/a
42	TBP	chr6:34664699-34665344	GM12878	blood:	n/a	n/a
43	ZMIZ1	chr6:34664694-34665348	K562	blood:	n/a	n/a
44	GATA1	chr6:34664683-34665401	PBDE	blood:	n/a	n/a
45	MTA3	chr6:34664565-34665440	GM12878	blood:	n/a	n/a
46	TBP	chr6:34664323-34666026	K562	blood:	n/a	n/a
47	ELK1	chr6:34664748-34665369	GM12878	blood:	n/a	n/a
48	EP300	chr6:34664705-34665365	GM12878	blood:	n/a	n/a
49	MAZ	chr6:34663040-34666053	K562	blood:	n/a	n/a
50	HEY1	chr6:34664716-34665369	K562	blood:	n/a	n/a

No data

(count:14 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:34663247..34666234-chr6:34723415..34727175,3	K562	blood:
2	chr6:34663461..34666396-chr6:34758437..34761219,3	K562	blood:
3	chr6:34663907..34669185-chr6:34723600..34728462,6	MCF-7	breast:
4	chr6:34660360..34662631-chr6:34662736..34665398,3	K562	blood:
5	chr6:34665132..34667717-chr6:34706629..34708944,2	MCF-7	breast:
6	chr6:34664734..34666755-chr6:34668036..34669637,2	K562	blood:
7	chr6:34433144..34435297-chr6:34663197..34665594,2	MCF-7	breast:
8	chr6:34659775..34661894-chr6:34663558..34666240,3	K562	blood:
9	chr6:34664965..34667279-chr6:34675934..34678672,3	K562	blood:
10	chr6:34663247..34666328-chr6:34722695..34726583,8	K562	blood:
11	chr6:34664585..34666258-chr6:34723626..34725241,2	MCF-7	breast:
12	chr6:34392408..34394621-chr6:34663502..34666102,2	K562	blood:
13	chr6:34649586..34652220-chr6:34663564..34665833,2	MCF-7	breast:
14	chr6:34662945..34666396-chr6:34758284..34762755,7	K562	blood:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SNRPC-2	chr6:34664936-34665339	NONHSAT112145

No data

Variant related genes	Relation type
C6orf106	TF binding region
ENSG00000270800	Chromatin interaction
ENSG00000065060	Chromatin interaction
ENSG00000239059	Chromatin interaction
ENSG00000238484	Chromatin interaction
ENSG00000124614	Chromatin interaction
ENSG00000124562	Chromatin interaction
ENSG00000124507	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1022844	chr6:34317219-35060519	Weak transcription Genic enhancers Enhancers Active TSS Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
2	nsv538195	chr6:34317219-35060519	Enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Weak transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
3	esv2758046	chr6:34382492-34714677	Genic enhancers Enhancers Active TSS Strong transcription Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
4	esv2759418	chr6:34382492-34714677	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
5	nsv885785	chr6:34404636-34874002	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
6	nsv1033583	chr6:34471572-34828372	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
7	nsv885793	chr6:34520267-34886436	Active TSS Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
8	nsv830640	chr6:34542489-34714677	Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Weak transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
9	nsv885794	chr6:34561585-34673149	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
10	nsv1032557	chr6:34565802-34802008	Active TSS Weak transcription Flanking Active TSS Enhancers Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
11	nsv538196	chr6:34565802-34802008	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
12	esv2763967	chr6:34566255-34925463	Weak transcription Active TSS Flanking Active TSS Enhancers Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
13	nsv1020710	chr6:34607214-34890143	Strong transcription Active TSS Weak transcription Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
14	nsv5255	chr6:34658569-34703563	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
15	esv3341496	chr6:34663774-34665822	Flanking Active TSS Active TSS Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:108 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:34659800-34665600	Active TSS	GM12878-XiMat	blood
2	chr6:34662200-34665400	Active TSS	Pancreatic Islets	Pancreatic Islet
3	chr6:34662600-34665400	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr6:34662800-34665400	Active TSS	ES-I3 Cell Line	embryonic stem cell
5	chr6:34662800-34665400	Active TSS	HSMMtube	muscle
6	chr6:34662800-34665600	Active TSS	Rectal Mucosa Donor 29	rectum
7	chr6:34663000-34665400	Active TSS	H9 Cell Line	embryonic stem cell
8	chr6:34663200-34665400	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr6:34663200-34665400	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr6:34663200-34665400	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr6:34663200-34665400	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr6:34663200-34665400	Active TSS	Colon Smooth Muscle	Colon
13	chr6:34663200-34665400	Active TSS	Fetal Intestine Large	intestine
14	chr6:34663200-34665400	Active TSS	Ovary	ovary
15	chr6:34663200-34665600	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr6:34663400-34665400	Active TSS	ES-WA7 Cell Line	embryonic stem cell
17	chr6:34663400-34665400	Active TSS	iPS-15b Cell Line	embryonic stem cell
18	chr6:34663400-34665400	Active TSS	iPS-20b Cell Line	embryonic stem cell
19	chr6:34663400-34665400	Active TSS	Breast Myoepithelial Primary Cells	Breast
20	chr6:34663400-34665400	Active TSS	Muscle Satellite Cultured Cells	--
21	chr6:34663400-34665400	Active TSS	HSMM	muscle
22	chr6:34663400-34665400	Active TSS	NHDF-Ad	bronchial
23	chr6:34663400-34665400	Active TSS	NHEK	skin
24	chr6:34663400-34665800	Active TSS	A549	lung
25	chr6:34663600-34665400	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr6:34663600-34665400	Active TSS	iPS-18 Cell Line	embryonic stem cell
27	chr6:34663600-34665400	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr6:34663600-34665400	Active TSS	Fetal Intestine Small	intestine
29	chr6:34663600-34665400	Active TSS	Psoas Muscle	Psoas
30	chr6:34663600-34665400	Active TSS	Sigmoid Colon	Sigmoid Colon
31	chr6:34663600-34665400	Active TSS	Hela-S3	cervix
32	chr6:34663600-34665400	Active TSS	Osteobl	bone
33	chr6:34663600-34665600	Active TSS	K562	blood
34	chr6:34663600-34665800	Active TSS	HUES6 Cell Line	embryonic stem cell
35	chr6:34663600-34666000	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
36	chr6:34663800-34665400	Active TSS	HUES64 Cell Line	embryonic stem cell
37	chr6:34663800-34665400	Active TSS	Primary T killer memory cells from peripheral blood	blood
38	chr6:34663800-34665400	Active TSS	Fetal Kidney	kidney
39	chr6:34663800-34665400	Active TSS	Fetal Lung	lung
40	chr6:34663800-34665400	Active TSS	Fetal Stomach	stomach
41	chr6:34663800-34665400	Active TSS	Rectal Smooth Muscle	rectum
42	chr6:34663800-34665400	Active TSS	Right Ventricle	heart
43	chr6:34663800-34665400	Bivalent/Poised TSS	HepG2	liver
44	chr6:34663800-34665400	Active TSS	NH-A	brain
45	chr6:34663800-34665800	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
46	chr6:34664000-34665400	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
47	chr6:34664000-34665400	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
48	chr6:34664000-34665400	Active TSS	Primary T killer naive cells fromperipheralblood	blood
49	chr6:34664000-34665400	Active TSS	Cortex derived primary cultured neurospheres	brain
50	chr6:34664000-34665400	Active TSS	Brain Cingulate Gyrus	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links