Variant report

Variant	rs1398269
Chromosome Location	chr4:149316376-149316377
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:149310101..149312108-chr4:149313600..149316381,2	MCF-7	breast:

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10009023	0.81[AFR][1000 genomes]
rs10434100	0.91[JPT][hapmap]
rs10519963	0.91[JPT][hapmap]
rs11722067	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1398268	1.00[YRI][hapmap];0.93[AFR][1000 genomes]
rs1512326	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1512328	1.00[JPT][hapmap];0.87[YRI][hapmap];0.91[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs1512335	0.91[JPT][hapmap]
rs1877445	0.90[JPT][hapmap]
rs1913023	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2048547	0.90[JPT][hapmap];0.87[YRI][hapmap]
rs2063553	0.88[JPT][hapmap]
rs2063555	0.91[JPT][hapmap]
rs2063556	0.82[JPT][hapmap]
rs2137330	0.91[JPT][hapmap]
rs61764777	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6825048	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7686433	0.92[JPT][hapmap]
rs907617	0.93[AFR][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	nsv1027263	chr4:149127120-149320135	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv537296	chr4:149127120-149320135	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv1016966	chr4:149209467-149341037	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv530433	chr4:149277637-149669181	Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:149297800-149350000	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr4:149299000-149329000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
3	chr4:149299200-149318400	Weak transcription	Primary T helper cells fromperipheralblood	blood
4	chr4:149306200-149316600	Weak transcription	Skeletal Muscle Female	skeletal muscle
5	chr4:149307200-149318200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
6	chr4:149307200-149318200	Weak transcription	Pancreas	Pancrea
7	chr4:149307400-149318200	Weak transcription	Ovary	ovary
8	chr4:149307600-149316600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
9	chr4:149307600-149336600	Weak transcription	Aorta	Aorta
10	chr4:149309400-149320000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
11	chr4:149311800-149318200	Weak transcription	Stomach Mucosa	stomach
12	chr4:149312400-149318200	Weak transcription	Rectal Mucosa Donor 31	rectum
13	chr4:149312800-149338800	Weak transcription	Brain Hippocampus Middle	brain
14	chr4:149313200-149326400	Weak transcription	Fetal Intestine Small	intestine
15	chr4:149313800-149316600	Weak transcription	Skeletal Muscle Male	skeletal muscle
16	chr4:149313800-149318200	Weak transcription	Right Atrium	heart
17	chr4:149314800-149318200	Weak transcription	Psoas Muscle	Psoas
18	chr4:149315200-149318200	Weak transcription	Gastric	stomach
19	chr4:149315400-149318200	Weak transcription	Fetal Muscle Trunk	muscle
20	chr4:149315400-149318200	Weak transcription	Left Ventricle	heart
21	chr4:149315400-149318200	Weak transcription	Lung	lung
22	chr4:149315400-149318800	Weak transcription	Primary T helper cells PMA-I stimulated	--
23	chr4:149315800-149318200	Weak transcription	Fetal Muscle Leg	muscle
24	chr4:149315800-149318200	Weak transcription	Sigmoid Colon	Sigmoid Colon
25	chr4:149315800-149326400	Weak transcription	Right Ventricle	heart

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