Variant report

Variant	rs3770022
Chromosome Location	chr2:178544925-178544926
allele	A/G
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	IRF1	chr2:178544862-178545289	K562	blood:	n/a	chr2:178545180-178545192 chr2:178545198-178545207 chr2:178545177-178545191 chr2:178545180-178545192 chr2:178545234-178545250 chr2:178545268-178545277
2	ARID3A	chr2:178544614-178545268	K562	blood:	n/a	n/a
3	RCOR1	chr2:178544567-178545377	K562	blood:	n/a	n/a
4	EP300	chr2:178544577-178545316	K562	blood:	n/a	n/a
5	CCNT2	chr2:178544654-178545350	K562	blood:	n/a	chr2:178545114-178545134
6	GATA1	chr2:178544634-178545326	PBDE	blood:	n/a	chr2:178545116-178545125 chr2:178545116-178545123 chr2:178545115-178545125 chr2:178545117-178545134
7	TAL1	chr2:178544645-178545296	K562	blood:	n/a	n/a
8	TEAD4	chr2:178544558-178545320	K562	blood:	n/a	n/a
9	MAX	chr2:178544641-178545167	K562	blood:	n/a	n/a
10	BHLHE40	chr2:178544674-178545243	K562	blood:	n/a	n/a
11	MYC	chr2:178544649-178545279	K562	blood:	n/a	n/a
12	UBTF	chr2:178544769-178545217	K562	blood:	n/a	n/a
13	MAZ	chr2:178544550-178545287	K562	blood:	n/a	n/a
14	ZMIZ1	chr2:178544639-178545234	K562	blood:	n/a	n/a
15	TBL1XR1	chr2:178544592-178545296	K562	blood:	n/a	n/a
16	RCOR1	chr2:178544505-178545307	K562	blood:	n/a	n/a
17	CUX1	chr2:178544745-178545235	K562	blood:	n/a	n/a
18	JUND	chr2:178544607-178545270	K562	blood:	n/a	n/a
19	HMGN3	chr2:178544905-178545203	K562	blood:	n/a	n/a
20	MAFK	chr2:178544839-178545183	K562	blood:	n/a	n/a
21	MYC	chr2:178544662-178545170	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:178540518..178542600-chr2:178544661..178547619,2	MCF-7	breast:

Variant related genes	Relation type
PDE11A	TF binding region
ENSG00000128655	Chromatin interaction

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10497498	0.82[CHB][hapmap];0.82[JPT][hapmap]
rs11891283	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1527405	0.93[JPT][hapmap]
rs1527408	0.93[JPT][hapmap]
rs16865443	0.84[JPT][hapmap]
rs16865444	0.84[JPT][hapmap]
rs16865446	0.82[CHB][hapmap];0.82[JPT][hapmap]
rs16865448	0.84[JPT][hapmap]
rs16865449	0.84[JPT][hapmap]
rs16865475	0.84[JPT][hapmap]
rs16865524	0.93[JPT][hapmap]
rs17400121	1.00[YRI][hapmap]
rs2293472	0.84[JPT][hapmap]
rs2293473	0.82[JPT][hapmap]
rs2695317	0.84[JPT][hapmap]
rs3731803	0.84[JPT][hapmap]
rs3731804	0.84[JPT][hapmap]
rs3731806	0.82[JPT][hapmap]
rs3770018	0.89[CEU][hapmap];0.88[CHB][hapmap];0.93[JPT][hapmap];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3770019	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3770020	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3821003	0.82[CHB][hapmap];0.82[JPT][hapmap]
rs3821004	0.82[CHB][hapmap];0.82[JPT][hapmap]
rs3821005	0.82[JPT][hapmap]
rs57538850	0.83[ASN][1000 genomes]
rs60295960	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6433691	0.88[CEU][hapmap];0.94[EUR][1000 genomes]
rs6718206	0.94[EUR][1000 genomes]
rs6746845	0.93[JPT][hapmap]
rs73979516	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7562940	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9288008	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9677333	1.00[CEU][hapmap];0.93[CHB][hapmap];0.93[JPT][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9677970	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[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	nsv999086	chr2:178262348-178773585	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv536055	chr2:178262348-178773585	Active TSS Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
3	nsv431812	chr2:178525371-178584470	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv1007925	chr2:178535922-178577002	Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:178536600-178556000	Weak transcription	Pancreas	Pancrea
2	chr2:178540000-178547400	Enhancers	Fetal Kidney	kidney
3	chr2:178541400-178545000	Weak transcription	Colon Smooth Muscle	Colon
4	chr2:178543400-178546400	Enhancers	Rectal Mucosa Donor 31	rectum
5	chr2:178543800-178545000	Enhancers	Skeletal Muscle Female	skeletal muscle
6	chr2:178544000-178548000	Enhancers	K562	blood
7	chr2:178544200-178545000	Weak transcription	Duodenum Mucosa	Duodenum
8	chr2:178544400-178545000	Enhancers	Rectal Mucosa Donor 29	rectum
9	chr2:178544400-178545200	Enhancers	Adipose Nuclei	Adipose
10	chr2:178544600-178545000	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr2:178544600-178545000	Enhancers	Fetal Muscle Leg	muscle
12	chr2:178544600-178545000	Enhancers	Psoas Muscle	Psoas
13	chr2:178544600-178545200	Enhancers	Fetal Stomach	stomach
14	chr2:178544600-178545200	Enhancers	Ovary	ovary
15	chr2:178544600-178545400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
16	chr2:178544600-178545400	Enhancers	Sigmoid Colon	Sigmoid Colon
17	chr2:178544600-178546800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr2:178544600-178552600	Weak transcription	Fetal Intestine Small	intestine
19	chr2:178544800-178545000	Enhancers	HUES6 Cell Line	embryonic stem cell
20	chr2:178544800-178545000	Enhancers	Rectal Smooth Muscle	rectum
21	chr2:178544800-178545000	Bivalent Enhancer	HUVEC	blood vessel
22	chr2:178544800-178545200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
23	chr2:178544800-178545200	Enhancers	Colonic Mucosa	Colon
24	chr2:178544800-178545200	Enhancers	Right Atrium	heart
25	chr2:178544800-178545400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr2:178544800-178545400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr2:178544800-178545400	Enhancers	Small Intestine	intestine

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