Variant report

Variant	rs28649856
Chromosome Location	chr4:110634280-110634281
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:110629808..110632372-chr4:110632728..110634458,2	MCF-7	breast:
2	chr4:110629777..110633462-chr4:110634208..110638979,5	K562	blood:
3	chr4:110623428..110625453-chr4:110631724..110634385,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000138794	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs12331637	0.83[AFR][1000 genomes]
rs13435023	0.81[YRI][hapmap]
rs28377596	1.00[AMR][1000 genomes]
rs28411711	1.00[AMR][1000 genomes]
rs28547481	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4557260	1.00[AMR][1000 genomes]
rs5030525	0.93[YRI][hapmap]
rs5030527	1.00[MEX][hapmap];0.93[YRI][hapmap]
rs5030554	1.00[AMR][1000 genomes]
rs5030561	1.00[MEX][hapmap]
rs5030570	0.93[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59305682	1.00[AMR][1000 genomes]
rs6831048	1.00[MEX][hapmap]
rs72886551	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72886592	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72886599	0.83[AFR][1000 genomes]
rs72900750	0.83[AFR][1000 genomes]
rs9999936	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3349784	chr4:110348873-110723163	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	nsv595142	chr4:110609481-110656730	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:110624600-110637000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr4:110625000-110635400	Weak transcription	Psoas Muscle	Psoas
3	chr4:110625000-110637200	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr4:110625000-110637200	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr4:110625000-110638000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
6	chr4:110625000-110638200	Weak transcription	Esophagus	oesophagus
7	chr4:110625000-110640200	Weak transcription	Aorta	Aorta
8	chr4:110625000-110641800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr4:110625000-110649200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr4:110625000-110649400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
11	chr4:110625000-110650400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr4:110625000-110650400	Weak transcription	Spleen	Spleen
13	chr4:110625200-110634400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr4:110625200-110634600	Weak transcription	NHDF-Ad	bronchial
15	chr4:110625200-110635600	Weak transcription	H9 Cell Line	embryonic stem cell
16	chr4:110625200-110637600	Weak transcription	Brain Angular Gyrus	brain
17	chr4:110625200-110637800	Weak transcription	Fetal Thymus	thymus
18	chr4:110625200-110640600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
19	chr4:110625200-110642400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr4:110625200-110649200	Weak transcription	Rectal Smooth Muscle	rectum
21	chr4:110625200-110649200	Weak transcription	NH-A	brain
22	chr4:110625200-110650200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
23	chr4:110625200-110650200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
24	chr4:110625400-110634600	Weak transcription	Brain Germinal Matrix	brain
25	chr4:110625400-110634800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
26	chr4:110625400-110636800	Weak transcription	NHLF	lung
27	chr4:110625400-110637200	Weak transcription	Primary B cells from cord blood	blood
28	chr4:110625400-110637200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
29	chr4:110625400-110637200	Weak transcription	Fetal Muscle Trunk	muscle
30	chr4:110625400-110637200	Weak transcription	Skeletal Muscle Male	skeletal muscle
31	chr4:110625400-110638000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
32	chr4:110625400-110640400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
33	chr4:110625400-110643200	Weak transcription	Colon Smooth Muscle	Colon
34	chr4:110625400-110648800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
35	chr4:110625400-110649000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr4:110625400-110649400	Weak transcription	HUVEC	blood vessel
37	chr4:110625600-110634600	Weak transcription	Primary B cells from peripheral blood	blood
38	chr4:110625600-110636000	Weak transcription	Thymus	Thymus
39	chr4:110625600-110636800	Weak transcription	HepG2	liver
40	chr4:110625600-110637800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
41	chr4:110625600-110637800	Weak transcription	Fetal Kidney	kidney
42	chr4:110625800-110637600	Weak transcription	Primary monocytes fromperipheralblood	blood
43	chr4:110625800-110642800	Weak transcription	Colonic Mucosa	Colon
44	chr4:110625800-110643400	Weak transcription	Fetal Stomach	stomach
45	chr4:110625800-110644200	Weak transcription	Monocytes-CD14+_RO01746	blood
46	chr4:110625800-110648600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
47	chr4:110625800-110648800	Weak transcription	Hela-S3	cervix
48	chr4:110625800-110649400	Weak transcription	Brain Substantia Nigra	brain
49	chr4:110626000-110637200	Weak transcription	Fetal Lung	lung
50	chr4:110626000-110637400	Weak transcription	Stomach Smooth Muscle	stomach

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