Variant report

Variant	rs13027316
Chromosome Location	chr2:10781609-10781610
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:10781555..10784930-chr2:10784952..10786989,3	MCF-7	breast:
2	chr2:10776080..10777599-chr2:10780573..10782141,2	K562	blood:
3	chr2:10576963..10578657-chr2:10781507..10783403,2	K562	blood:
4	chr2:10781573..10784280-chr2:10828767..10831016,2	K562	blood:

Variant related genes	Relation type
ENSG00000115761	Chromatin interaction
ENSG00000243819	Chromatin interaction

Extended variants
information (count: 79 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs10084172	0.91[AFR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10166765	0.82[ASN][1000 genomes]
rs10167779	0.91[AFR][1000 genomes];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10168351	0.83[AFR][1000 genomes];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10168852	0.84[AFR][1000 genomes];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10174605	0.82[ASN][1000 genomes]
rs10177062	0.81[ASN][1000 genomes]
rs10178751	0.90[ASN][1000 genomes]
rs10182589	0.82[ASN][1000 genomes]
rs10183359	0.90[ASN][1000 genomes]
rs10183883	0.85[ASN][1000 genomes]
rs10186984	0.90[ASN][1000 genomes]
rs10199831	0.82[ASN][1000 genomes]
rs10202370	0.81[ASN][1000 genomes]
rs10207885	0.90[ASN][1000 genomes]
rs10208103	0.82[ASN][1000 genomes]
rs10211190	0.82[ASN][1000 genomes]
rs10803724	0.89[ASN][1000 genomes]
rs10803725	0.89[ASN][1000 genomes]
rs10929678	0.82[ASN][1000 genomes]
rs10929679	0.82[ASN][1000 genomes]
rs10929680	0.82[ASN][1000 genomes]
rs10929681	0.82[ASN][1000 genomes]
rs10929683	0.90[ASN][1000 genomes]
rs10929684	0.90[ASN][1000 genomes]
rs10929685	0.90[ASN][1000 genomes]
rs11676409	0.83[ASN][1000 genomes]
rs11680664	0.90[ASN][1000 genomes]
rs11684537	0.90[ASN][1000 genomes]
rs12104950	0.90[ASN][1000 genomes]
rs12329184	0.82[ASN][1000 genomes]
rs12474625	0.88[ASN][1000 genomes]
rs12475662	0.90[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs12476554	0.90[ASN][1000 genomes]
rs12613769	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12618726	0.90[ASN][1000 genomes]
rs12621977	0.82[ASN][1000 genomes]
rs12622053	0.82[ASN][1000 genomes]
rs12690510	0.81[ASN][1000 genomes]
rs12692412	0.82[ASN][1000 genomes]
rs12692414	0.84[ASN][1000 genomes]
rs12692420	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13009015	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13407040	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13424648	0.94[AFR][1000 genomes];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13425171	0.84[AFR][1000 genomes];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13430911	0.89[AFR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1861299	0.89[AFR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1861300	0.89[AFR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2024432	0.90[ASN][1000 genomes]
rs2024433	0.90[ASN][1000 genomes]
rs34595606	0.82[ASN][1000 genomes]
rs35859525	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55750243	0.90[AFR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs55974540	0.87[ASN][1000 genomes]
rs56011298	0.88[ASN][1000 genomes]
rs62127189	0.87[AFR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62127197	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62128635	0.82[ASN][1000 genomes]
rs6711473	0.82[ASN][1000 genomes]
rs6714787	0.90[ASN][1000 genomes]
rs6717431	0.82[ASN][1000 genomes]
rs6720112	0.82[ASN][1000 genomes]
rs6721857	0.82[ASN][1000 genomes]
rs6722126	0.82[ASN][1000 genomes]
rs6730247	0.82[ASN][1000 genomes]
rs6732429	0.90[ASN][1000 genomes]
rs6740245	0.91[ASN][1000 genomes]
rs6751436	0.82[ASN][1000 genomes]
rs6755281	0.91[AFR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs744809	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7572489	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9287721	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1007185	chr2:10540386-10791743	Weak transcription Genic enhancers Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
2	nsv833370	chr2:10625149-10785402	Enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
3	nsv1000953	chr2:10717304-10921805	Strong transcription Enhancers Active TSS Bivalent Enhancer Genic enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
4	nsv535584	chr2:10717304-10921805	Bivalent Enhancer Weak transcription Strong transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
5	nsv833381	chr2:10723465-10911284	Strong transcription Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers Enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
6	nsv1000731	chr2:10758657-10943882	Strong transcription Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:10725600-10793400	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr2:10725800-10787000	Weak transcription	Fetal Heart	heart
3	chr2:10729400-10781800	Weak transcription	Brain Inferior Temporal Lobe	brain
4	chr2:10729400-10798400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr2:10740200-10782000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
6	chr2:10742600-10791000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr2:10742800-10782400	Weak transcription	Esophagus	oesophagus
8	chr2:10746600-10781800	Weak transcription	Right Ventricle	heart
9	chr2:10746800-10781800	Weak transcription	Pancreas	Pancrea
10	chr2:10747000-10781800	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr2:10753600-10792800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr2:10754800-10796000	Weak transcription	Small Intestine	intestine
13	chr2:10756200-10795800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
14	chr2:10756200-10828400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr2:10758000-10782000	Weak transcription	Brain Hippocampus Middle	brain
16	chr2:10761000-10782200	Weak transcription	NHLF	lung
17	chr2:10761000-10783000	Weak transcription	Brain Angular Gyrus	brain
18	chr2:10761200-10782400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
19	chr2:10761200-10782800	Weak transcription	Brain Anterior Caudate	brain
20	chr2:10761800-10782000	Weak transcription	Gastric	stomach
21	chr2:10761800-10793600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
22	chr2:10762000-10793600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
23	chr2:10765600-10787200	Weak transcription	Fetal Brain Male	brain
24	chr2:10771800-10793400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr2:10772200-10793400	Strong transcription	Primary T helper cells PMA-I stimulated	--
26	chr2:10772200-10808400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
27	chr2:10772400-10785000	Strong transcription	HUES48 Cell Line	embryonic stem cell
28	chr2:10772400-10793600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
29	chr2:10772800-10783200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
30	chr2:10773000-10784400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
31	chr2:10773800-10781800	Weak transcription	Cortex derived primary cultured neurospheres	brain
32	chr2:10774600-10781800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
33	chr2:10774600-10789800	Weak transcription	Fetal Kidney	kidney
34	chr2:10775000-10781800	Weak transcription	Fetal Brain Female	brain
35	chr2:10775000-10782200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
36	chr2:10775000-10782200	Weak transcription	HSMM	muscle
37	chr2:10775000-10787400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
38	chr2:10775000-10793000	Weak transcription	Psoas Muscle	Psoas
39	chr2:10775000-10793800	Weak transcription	Stomach Mucosa	stomach
40	chr2:10775000-10794200	Weak transcription	HUVEC	blood vessel
41	chr2:10775200-10782600	Weak transcription	Brain Cingulate Gyrus	brain
42	chr2:10775400-10784600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
43	chr2:10776000-10781800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
44	chr2:10776000-10782800	Weak transcription	NHDF-Ad	bronchial
45	chr2:10776200-10793600	Strong transcription	Primary T helper cells fromperipheralblood	blood
46	chr2:10776200-10803000	Strong transcription	HUES6 Cell Line	embryonic stem cell
47	chr2:10776600-10782800	Weak transcription	Ovary	ovary
48	chr2:10777000-10781800	Weak transcription	K562	blood
49	chr2:10777200-10783000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
50	chr2:10777800-10781800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links