Variant report

Variant	rs13221394
Chromosome Location	chr7:25424234-25424235
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

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

rs_ID	r²[population]
rs1002203	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1004709	1.00[ASN][1000 genomes]
rs1015497	0.80[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10807824	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11764103	0.86[EUR][1000 genomes]
rs11769627	0.88[EUR][1000 genomes]
rs11972231	0.87[CEU][hapmap];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11981869	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12672062	0.87[EUR][1000 genomes]
rs12700616	0.86[EUR][1000 genomes]
rs12700617	0.87[EUR][1000 genomes]
rs12700618	0.87[EUR][1000 genomes]
rs12700619	0.82[EUR][1000 genomes]
rs12700620	0.87[EUR][1000 genomes]
rs12700621	0.87[EUR][1000 genomes]
rs12700624	0.81[CEU][hapmap];0.88[EUR][1000 genomes]
rs12700625	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12700628	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13310680	0.83[EUR][1000 genomes]
rs17310037	1.00[ASN][1000 genomes]
rs1988282	0.84[EUR][1000 genomes]
rs1988283	0.85[EUR][1000 genomes]
rs2188993	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs56105280	1.00[ASN][1000 genomes]
rs62452191	1.00[ASN][1000 genomes]
rs62452194	1.00[ASN][1000 genomes]
rs62452195	1.00[ASN][1000 genomes]
rs6461862	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6461864	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6953741	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6964890	0.86[EUR][1000 genomes]
rs7811651	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs929239	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs929240	1.00[AMR][1000 genomes];0.99[EUR][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	nsv606424	chr7:24982529-25466521	Genic enhancers Flanking Active TSS Active TSS Enhancers Weak transcription Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	79 gene(s)	inside rSNPs	diseases
2	nsv606426	chr7:25254125-25621579	Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	nsv1016813	chr7:25405859-26150509	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	108 gene(s)	inside rSNPs	diseases
4	nsv538803	chr7:25405859-26150509	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	108 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:25416200-25425000	Weak transcription	Colon Smooth Muscle	Colon
2	chr7:25416200-25431600	Weak transcription	Rectal Smooth Muscle	rectum
3	chr7:25421400-25428400	Enhancers	Breast Myoepithelial Primary Cells	Breast
4	chr7:25422000-25425000	Weak transcription	Brain Germinal Matrix	brain
5	chr7:25422200-25425000	Weak transcription	Fetal Stomach	stomach
6	chr7:25422200-25425400	Weak transcription	Spleen	Spleen
7	chr7:25422800-25424800	Weak transcription	Fetal Brain Female	brain
8	chr7:25423200-25425800	Enhancers	Esophagus	oesophagus
9	chr7:25423200-25427000	Enhancers	Pancreas	Pancrea
10	chr7:25423400-25426400	Enhancers	Fetal Kidney	kidney
11	chr7:25423600-25424800	Weak transcription	Gastric	stomach
12	chr7:25423800-25424600	Enhancers	iPS-20b Cell Line	embryonic stem cell
13	chr7:25423800-25426800	Enhancers	Fetal Lung	lung
14	chr7:25423800-25427000	Enhancers	Fetal Brain Male	brain
15	chr7:25423800-25428400	Weak transcription	Pancreatic Islets	Pancreatic Islet
16	chr7:25424000-25426600	Enhancers	Fetal Muscle Leg	muscle
17	chr7:25424000-25426800	Enhancers	Cortex derived primary cultured neurospheres	brain
18	chr7:25424200-25424400	Enhancers	Rectal Mucosa Donor 31	rectum
19	chr7:25424200-25424400	Enhancers	Sigmoid Colon	Sigmoid Colon
20	chr7:25424200-25424600	Enhancers	Primary T cells from cord blood	blood
21	chr7:25424200-25424600	Enhancers	Brain Anterior Caudate	brain
22	chr7:25424200-25424600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
23	chr7:25424200-25425400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
24	chr7:25424200-25425800	Enhancers	Skeletal Muscle Female	skeletal muscle
25	chr7:25424200-25426000	Enhancers	Adipose Nuclei	Adipose
26	chr7:25424200-25426800	Enhancers	Fetal Muscle Trunk	muscle

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