Variant report

Variant	rs10263240
Chromosome Location	chr7:7959842-7959843
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

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

No.	Distal block	Cell Line	Cell type
1	chr7:7958467..7959967-chr7:8328195..8331123,2	K562	blood:
2	chr7:7952035..7955913-chr7:7956512..7960009,4	MCF-7	breast:
3	chr7:7956835..7959922-chr7:8007692..8010316,3	MCF-7	breast:
4	chr7:7958223..7960322-chr7:7962105..7964489,3	MCF-7	breast:
5	chr7:7949577..7953346-chr7:7959266..7963720,5	MCF-7	breast:
6	chr1:151028007..151030723-chr7:7959783..7961888,2	MCF-7	breast:
7	chr7:7959000..7960788-chr7:8011254..8013968,2	MCF-7	breast:
8	chr7:7953946..7955659-chr7:7959073..7960806,2	K562	blood:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-GLCCI1-6	chr7:7959367-7960001	NONHSAT119135

No data

Variant related genes	Relation type
ENSG00000106415	Chromatin interaction
ENSG00000213190	Chromatin interaction
ENSG00000233108	Chromatin interaction
ENSG00000214998	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs10282585	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56250754	0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1026758	chr7:7187491-8075259	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	84 gene(s)	inside rSNPs	diseases
2	nsv1032670	chr7:7535515-8017077	Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	59 gene(s)	inside rSNPs	diseases
3	esv2752177	chr7:7729247-8177689	Weak transcription Enhancers Transcr. at gene 5' and 3' Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
4	nsv917172	chr7:7854632-8807385	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
5	nsv1030180	chr7:7860424-8059221	Flanking Active TSS ZNF genes & repeats Weak transcription Active TSS Enhancers Bivalent/Poised TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
6	nsv464304	chr7:7913819-7970560	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
7	nsv606046	chr7:7913819-7970560	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
8	esv3346837	chr7:7915187-8068557	Enhancers Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
9	nsv1020161	chr7:7929384-8047553	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
10	nsv525502	chr7:7938596-7996590	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
11	nsv606048	chr7:7938596-7996590	Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
12	nsv606049	chr7:7949059-7967424	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:7942600-7963600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr7:7949200-7960200	Weak transcription	Rectal Smooth Muscle	rectum
3	chr7:7953600-7963200	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr7:7957400-7960600	Enhancers	HUES48 Cell Line	embryonic stem cell
5	chr7:7957600-7964600	Enhancers	iPS-15b Cell Line	embryonic stem cell
6	chr7:7957800-7960400	Enhancers	iPS-18 Cell Line	embryonic stem cell
7	chr7:7957800-7964200	Enhancers	Primary B cells from peripheral blood	blood
8	chr7:7958000-7960200	Enhancers	HUES6 Cell Line	embryonic stem cell
9	chr7:7958000-7960400	Enhancers	ES-I3 Cell Line	embryonic stem cell
10	chr7:7958000-7964600	Enhancers	HUES64 Cell Line	embryonic stem cell
11	chr7:7958200-7960200	Enhancers	iPS-20b Cell Line	embryonic stem cell
12	chr7:7958400-7961000	Flanking Active TSS	GM12878-XiMat	blood
13	chr7:7958400-7964600	Enhancers	Primary B cells from cord blood	blood
14	chr7:7958600-7960000	Enhancers	Stomach Mucosa	stomach
15	chr7:7958600-7961400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr7:7958800-7960000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
17	chr7:7958800-7960000	Enhancers	Liver	Liver
18	chr7:7958800-7960000	Enhancers	Rectal Mucosa Donor 31	rectum
19	chr7:7959000-7960000	Enhancers	Primary T regulatory cells fromperipheralblood	blood
20	chr7:7959000-7960200	Weak transcription	Ovary	ovary
21	chr7:7959200-7960000	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
22	chr7:7959200-7962400	Enhancers	Brain Substantia Nigra	brain
23	chr7:7959400-7960600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
24	chr7:7959400-7961600	Weak transcription	Adipose Nuclei	Adipose
25	chr7:7959400-7961600	Weak transcription	Sigmoid Colon	Sigmoid Colon
26	chr7:7959600-7960000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
27	chr7:7959600-7960000	Enhancers	Brain Anterior Caudate	brain
28	chr7:7959600-7960000	Enhancers	Fetal Intestine Small	intestine
29	chr7:7959600-7960200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
30	chr7:7959600-7960400	Enhancers	H1 Cell Line	embryonic stem cell
31	chr7:7959600-7960800	Active TSS	Duodenum Mucosa	Duodenum
32	chr7:7959600-7960800	Active TSS	Rectal Mucosa Donor 29	rectum
33	chr7:7959800-7960000	Enhancers	Fetal Intestine Large	intestine
34	chr7:7959800-7960200	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
35	chr7:7959800-7960200	Enhancers	Primary T helper cells fromperipheralblood	blood
36	chr7:7959800-7960200	Enhancers	Cortex derived primary cultured neurospheres	brain
37	chr7:7959800-7960200	Enhancers	Pancreatic Islets	Pancreatic Islet
38	chr7:7959800-7960400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
39	chr7:7959800-7960400	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
40	chr7:7959800-7960800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
41	chr7:7959800-7961200	Enhancers	Brain Germinal Matrix	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links