Variant report

Variant	rs10240912
Chromosome Location	chr7:111898000-111898001
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr7:111897853..111899387-chr7:112024609..112027579,2	K562	blood:
2	chr7:111897692..111901157-chr7:111901324..111906297,5	K562	blood:
3	chr7:111896290..111898894-chr7:111908883..111911406,2	MCF-7	breast:
4	chr7:111893104..111896006-chr7:111897098..111899676,2	MCF-7	breast:

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10233673	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs10251236	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10257677	0.80[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs10266365	0.84[ASN][1000 genomes]
rs10953706	0.87[ASN][1000 genomes]
rs11773464	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12113149	0.84[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs12154685	0.83[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs12537746	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12705817	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13236012	0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs4132325	0.84[ASN][1000 genomes]
rs4464880	0.86[ASN][1000 genomes]
rs4640999	0.86[ASN][1000 genomes]
rs4727766	0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4730519	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4730524	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs6949809	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6966390	0.84[ASN][1000 genomes]
rs6966694	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6974364	0.84[ASN][1000 genomes]
rs6976889	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6978767	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs6979385	0.80[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs736771	0.88[ASN][1000 genomes]
rs757195	0.84[ASN][1000 genomes]
rs757196	0.84[ASN][1000 genomes]
rs7792159	0.86[ASN][1000 genomes]
rs7802828	0.81[ASN][1000 genomes]
rs7811283	0.86[ASN][1000 genomes]
rs960348	0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531435	chr7:111333900-111926292	Weak transcription Enhancers Strong transcription Genic enhancers Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
2	nsv491934	chr7:111333900-111975504	Active TSS Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
3	nsv532335	chr7:111411990-112054905	Enhancers Strong transcription Flanking Active TSS Weak transcription ZNF genes & repeats Genic enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
4	nsv531436	chr7:111856171-112585407	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	105 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:111863800-111900200	Weak transcription	Left Ventricle	heart
2	chr7:111879400-111903000	Weak transcription	Psoas Muscle	Psoas
3	chr7:111879800-111906200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr7:111881800-111906400	Weak transcription	Primary hematopoietic stem cells	blood
5	chr7:111890400-111906200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
6	chr7:111892600-111901200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr7:111893200-111926000	Weak transcription	Primary T cells from cord blood	blood
8	chr7:111894200-111901000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr7:111894600-111900800	Weak transcription	Fetal Kidney	kidney
10	chr7:111894600-111903000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
11	chr7:111894600-111905000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
12	chr7:111895000-111903200	Weak transcription	Gastric	stomach
13	chr7:111895000-111903400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
14	chr7:111895600-111905600	Weak transcription	Primary T helper cells PMA-I stimulated	--
15	chr7:111896000-111900600	Weak transcription	Brain Inferior Temporal Lobe	brain
16	chr7:111896000-111900800	Weak transcription	HUES6 Cell Line	embryonic stem cell
17	chr7:111896000-111900800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
18	chr7:111896000-111901000	Weak transcription	H1 Cell Line	embryonic stem cell
19	chr7:111896000-111901000	Weak transcription	HUES48 Cell Line	embryonic stem cell
20	chr7:111896000-111901000	Weak transcription	Brain Anterior Caudate	brain
21	chr7:111896000-111901800	Weak transcription	Brain Cingulate Gyrus	brain
22	chr7:111896000-111913000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr7:111896200-111900600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
24	chr7:111896200-111900800	Weak transcription	HUES64 Cell Line	embryonic stem cell
25	chr7:111896200-111901000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
26	chr7:111896200-111901600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
27	chr7:111896400-111901200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
28	chr7:111896800-111898600	Enhancers	Pancreatic Islets	Pancreatic Islet
29	chr7:111896800-111922200	Weak transcription	Pancreas	Pancrea
30	chr7:111897400-111902400	Weak transcription	Rectal Mucosa Donor 29	rectum
31	chr7:111897600-111903200	Weak transcription	Rectal Mucosa Donor 31	rectum
32	chr7:111897600-111908000	Weak transcription	HepG2	liver
33	chr7:111897800-111903000	Weak transcription	Brain Substantia Nigra	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links