Variant report

Variant	rs539726420
Chromosome Location	chr7:26243789-26243790
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr7:26241874-26244447	K562	blood:	n/a	n/a
2	POLR2A	chr7:26243773-26243852	H1-hESC	embryonic stem cell:	n/a	n/a
3	IRF1	chr7:26243769-26244119	K562	blood:	n/a	chr7:26243946-26243958 chr7:26243883-26243893 chr7:26243883-26243897 chr7:26243882-26243895 chr7:26243875-26243895
4	POLR2A	chr7:26237697-26244169	K562	blood:	n/a	n/a
5	TBL1XR1	chr7:26243278-26244330	K562	blood:	n/a	n/a
6	MXI1	chr7:26234540-26244604	SK-N-SH	brain:	n/a	n/a
7	CHD1	chr7:26234064-26243804	H1-hESC	embryonic stem cell:	n/a	n/a
8	POLR2A	chr7:26243752-26244478	PANC-1	pancreas:	n/a	n/a
9	POLR2A	chr7:26243390-26244242	MCF10A-Er-Src	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr20:61273225..61273955-chr7:26243356..26243856,2	Hela-S3	cervix:
2	chr7:26238789..26244149-chr7:26328226..26335284,15	MCF-7	breast:
3	chr7:26189582..26191145-chr7:26243499..26245167,2	K562	blood:
4	chr7:26134161..26136379-chr7:26242320..26244096,2	K562	blood:
5	chr7:26188281..26195881-chr7:26237249..26245873,15	K562	blood:

Variant related genes	Relation type
CBX3	TF binding region
HNRNPA2B1	TF binding region
ENSG00000086300	Chromatin interaction
ENSG00000050344	Chromatin interaction
ENSG00000101187	Chromatin interaction

Extended variants
information (count: 10 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1021308	chr7:26116605-26419720	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	166 gene(s)	inside rSNPs	diseases
2	nsv1018971	chr7:26161228-26380361	Strong transcription Flanking Active TSS Weak transcription Genic enhancers Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	165 gene(s)	inside rSNPs	diseases
3	nsv887850	chr7:26236235-26244365	Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	140 gene(s)	inside rSNPs	n/a
4	nsv887851	chr7:26236235-26248965	Flanking Active TSS Active TSS Weak transcription Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	140 gene(s)	inside rSNPs	n/a
5	nsv887852	chr7:26236933-26244365	Transcr. at gene 5' and 3' Flanking Active TSS Enhancers Active TSS Genic enhancers Weak transcription Bivalent/Poised TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	140 gene(s)	inside rSNPs	n/a
6	nsv887853	chr7:26236933-26248965	Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Enhancers Active TSS Genic enhancers Weak transcription Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	140 gene(s)	inside rSNPs	n/a
7	nsv887854	chr7:26238100-26248965	Weak transcription Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	136 gene(s)	inside rSNPs	n/a
8	esv3376986	chr7:26242542-26248102	Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription Active TSS Genic enhancers Enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	10 gene(s)	inside rSNPs	n/a
9	esv3440481	chr7:26242638-26245990	Weak transcription Active TSS Genic enhancers Enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	10 gene(s)	inside rSNPs	n/a
10	esv1821097	chr7:26243108-26303403	Weak transcription Transcr. at gene 5' and 3' Strong transcription Active TSS Flanking Active TSS Genic enhancers Enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:26236200-26245200	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr7:26237000-26244400	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr7:26237000-26245400	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr7:26237200-26244000	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr7:26237200-26244400	Active TSS	Fetal Intestine Small	intestine
6	chr7:26237200-26244800	Active TSS	iPS-15b Cell Line	embryonic stem cell
7	chr7:26237200-26245000	Active TSS	Thymus	Thymus
8	chr7:26237400-26244000	Active TSS	Duodenum Mucosa	Duodenum
9	chr7:26237400-26244000	Active TSS	Fetal Intestine Large	intestine
10	chr7:26237400-26244200	Active TSS	Fetal Stomach	stomach
11	chr7:26237400-26244200	Active TSS	Psoas Muscle	Psoas
12	chr7:26237400-26244600	Active TSS	H9 Cell Line	embryonic stem cell
13	chr7:26237400-26244600	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr7:26237400-26244800	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr7:26237600-26243800	Active TSS	HSMMtube	muscle
16	chr7:26239000-26244000	Active TSS	HMEC	breast
17	chr7:26239200-26244000	Active TSS	Fetal Thymus	thymus
18	chr7:26239200-26244000	Active TSS	NHDF-Ad	bronchial
19	chr7:26239400-26244000	Active TSS	ES-I3 Cell Line	embryonic stem cell
20	chr7:26239400-26244000	Active TSS	Hela-S3	cervix
21	chr7:26239400-26244600	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr7:26239400-26244800	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
23	chr7:26241600-26244000	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr7:26242000-26245200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr7:26242000-26246200	Transcr. at gene 5' and 3'	Dnd41	blood
26	chr7:26242200-26244000	Weak transcription	Spleen	Spleen
27	chr7:26242200-26244200	Flanking Active TSS	Liver	Liver
28	chr7:26242200-26244400	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
29	chr7:26242200-26244400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
30	chr7:26242200-26244600	Flanking Active TSS	Primary hematopoietic stem cells	blood
31	chr7:26242200-26244800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr7:26242200-26245000	Flanking Active TSS	Primary T cells from cord blood	blood
33	chr7:26242200-26245400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
34	chr7:26242400-26243800	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
35	chr7:26242400-26244000	Flanking Active TSS	Pancreatic Islets	Pancreatic Islet
36	chr7:26242400-26244400	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
37	chr7:26242400-26245000	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
38	chr7:26242400-26245000	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr7:26242400-26245400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
40	chr7:26242400-26245400	Transcr. at gene 5' and 3'	iPS-18 Cell Line	embryonic stem cell
41	chr7:26242400-26245600	Transcr. at gene 5' and 3'	HUES6 Cell Line	embryonic stem cell
42	chr7:26242400-26246000	Transcr. at gene 5' and 3'	iPS-20b Cell Line	embryonic stem cell
43	chr7:26242400-26249400	Weak transcription	Stomach Mucosa	stomach
44	chr7:26242600-26243800	Flanking Active TSS	Duodenum Smooth Muscle	Duodenum
45	chr7:26242600-26243800	Transcr. at gene 5' and 3'	NH-A	brain
46	chr7:26242600-26244000	Weak transcription	Sigmoid Colon	Sigmoid Colon
47	chr7:26242600-26244200	Flanking Active TSS	Osteobl	bone
48	chr7:26242600-26244400	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
49	chr7:26242600-26244400	Enhancers	Brain Substantia Nigra	brain
50	chr7:26242600-26244400	Weak transcription	Left Ventricle	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links