Variant report

Variant	rs35273824
Chromosome Location	chr1:226076598-226076599
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:226061864..226068048-chr1:226072871..226078674,7	MCF-7	breast:
2	chr1:226068530..226073051-chr1:226075073..226079547,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000196187	Chromatin interaction

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10915886	0.81[AFR][1000 genomes]
rs10915887	0.81[AFR][1000 genomes]
rs10915888	0.81[AFR][1000 genomes]
rs10915890	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs10915895	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12061043	0.83[AFR][1000 genomes]
rs12070110	0.81[AFR][1000 genomes]
rs12070816	0.81[AFR][1000 genomes]
rs12071072	0.95[AFR][1000 genomes]
rs12071104	0.95[AFR][1000 genomes]
rs12071413	0.81[AFR][1000 genomes]
rs12074209	0.92[AFR][1000 genomes]
rs12074247	0.92[AFR][1000 genomes]
rs12077562	0.81[AFR][1000 genomes]
rs12077565	0.81[AFR][1000 genomes]
rs12078868	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs12079891	0.81[AFR][1000 genomes]
rs12080725	0.81[AFR][1000 genomes]
rs12081742	0.84[AFR][1000 genomes]
rs12082207	0.84[AFR][1000 genomes]
rs12083928	0.81[AFR][1000 genomes]
rs12084714	0.81[AFR][1000 genomes]
rs12091106	0.81[AFR][1000 genomes]
rs12092868	0.89[AMR][1000 genomes]
rs12094548	0.89[AMR][1000 genomes]
rs12097377	0.84[AFR][1000 genomes]
rs35684337	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56035614	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs56112955	0.84[AFR][1000 genomes]
rs56231004	0.83[AFR][1000 genomes]
rs58852301	0.81[AFR][1000 genomes]
rs60739570	0.84[AFR][1000 genomes]
rs61304305	0.81[AFR][1000 genomes]
rs74150538	0.81[AFR][1000 genomes]
rs74150539	0.84[AFR][1000 genomes]
rs74150558	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs74150559	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs74150561	0.89[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1795046	chr1:225874059-226091150	Weak transcription Flanking Active TSS Active TSS Enhancers Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	esv1834932	chr1:225874059-226091150	Enhancers Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
3	esv1834948	chr1:225874059-226214882	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
4	nsv524126	chr1:225973777-226210653	Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Strong transcription Enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
5	nsv873231	chr1:226019653-226134471	Enhancers Transcr. at gene 5' and 3' Strong transcription Weak transcription Genic enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
6	esv2762223	chr1:226025175-226201716	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
7	nsv520628	chr1:226026406-226093362	Enhancers Strong transcription Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Genic enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
8	esv3335650	chr1:226074720-226125458	Bivalent Enhancer Flanking Active TSS Active TSS Enhancers Genic enhancers Weak transcription Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
9	esv3369235	chr1:226075748-226127738	Genic enhancers Weak transcription Flanking Active TSS Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:54 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:226071000-226078600	Weak transcription	Lung	lung
2	chr1:226071000-226083600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
3	chr1:226071200-226078200	Weak transcription	Gastric	stomach
4	chr1:226071200-226078200	Weak transcription	HMEC	breast
5	chr1:226071600-226076800	Weak transcription	Duodenum Mucosa	Duodenum
6	chr1:226071800-226076800	Weak transcription	K562	blood
7	chr1:226071800-226078800	Weak transcription	Primary T cells from cord blood	blood
8	chr1:226072000-226076800	Weak transcription	Primary T cells fromperipheralblood	blood
9	chr1:226072000-226081200	Weak transcription	Primary T helper cells fromperipheralblood	blood
10	chr1:226072000-226081600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
11	chr1:226072000-226082000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
12	chr1:226073000-226077000	Strong transcription	Right Atrium	heart
13	chr1:226073200-226079800	Enhancers	Liver	Liver
14	chr1:226074200-226077000	Active TSS	ES-I3 Cell Line	embryonic stem cell
15	chr1:226074400-226076800	Active TSS	Rectal Mucosa Donor 29	rectum
16	chr1:226074400-226077200	Active TSS	Rectal Smooth Muscle	rectum
17	chr1:226074600-226076600	Weak transcription	Stomach Mucosa	stomach
18	chr1:226074800-226076800	Weak transcription	Fetal Intestine Large	intestine
19	chr1:226074800-226078800	Enhancers	Fetal Stomach	stomach
20	chr1:226075000-226076600	Active TSS	Rectal Mucosa Donor 31	rectum
21	chr1:226075000-226076800	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
22	chr1:226075200-226076600	Weak transcription	Fetal Intestine Small	intestine
23	chr1:226075200-226077200	Active TSS	Colonic Mucosa	Colon
24	chr1:226075400-226076800	Active TSS	Pancreatic Islets	Pancreatic Islet
25	chr1:226075400-226079200	Enhancers	Ovary	ovary
26	chr1:226075600-226076600	Bivalent Enhancer	Fetal Muscle Leg	muscle
27	chr1:226075600-226076800	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
28	chr1:226075600-226076800	Transcr. at gene 5' and 3'	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr1:226075800-226076800	Active TSS	ES-WA7 Cell Line	embryonic stem cell
30	chr1:226075800-226077000	Bivalent Enhancer	Fetal Muscle Trunk	muscle
31	chr1:226075800-226077600	Bivalent Enhancer	H1 Cell Line	embryonic stem cell
32	chr1:226075800-226079000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
33	chr1:226076000-226076800	Flanking Active TSS	Fetal Lung	lung
34	chr1:226076000-226076800	Enhancers	Right Ventricle	heart
35	chr1:226076000-226077000	Bivalent Enhancer	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr1:226076200-226076600	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
37	chr1:226076200-226076600	Flanking Active TSS	Pancreas	Pancrea
38	chr1:226076200-226076600	Active TSS	Small Intestine	intestine
39	chr1:226076200-226076800	Flanking Active TSS	Sigmoid Colon	Sigmoid Colon
40	chr1:226076200-226078800	Enhancers	A549	lung
41	chr1:226076200-226079000	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
42	chr1:226076400-226076600	Flanking Active TSS	H9 Cell Line	embryonic stem cell
43	chr1:226076400-226076600	Bivalent Enhancer	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
44	chr1:226076400-226076600	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
45	chr1:226076400-226076600	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
46	chr1:226076400-226076800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
47	chr1:226076400-226076800	Flanking Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
48	chr1:226076400-226076800	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin01	Skin
49	chr1:226076400-226077000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
50	chr1:226076400-226077000	Enhancers	Spleen	Spleen

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