Variant report

Variant	rs9459253
Chromosome Location	chr6:165340585-165340586
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:164767711..164769131-chr6:165340232..165341669,7	MCF-7	breast:
2	chr6:165335824..165337632-chr6:165338882..165340730,2	K562	blood:
3	chr6:164637205..164638102-chr6:165340164..165340958,2	MCF-7	breast:

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs12177583	0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12182160	0.80[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs12528995	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2093439	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2093442	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4385288	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6910737	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs752485	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9457026	0.83[AMR][1000 genomes]
rs9459254	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9459269	0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9459277	0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv605232	chr6:164994771-165401154	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv521153	chr6:165279393-165343557	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
3	nsv886925	chr6:165319631-165705488	Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
4	esv3410490	chr6:165337362-165341860	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	n/a
5	esv3414452	chr6:165337862-165341160	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	n/a
6	esv3446736	chr6:165338062-165341060	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	n/a

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:165333200-165346200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr6:165338200-165341200	Enhancers	Cortex derived primary cultured neurospheres	brain
3	chr6:165338200-165341400	Enhancers	Fetal Heart	heart
4	chr6:165338600-165341200	Weak transcription	Duodenum Smooth Muscle	Duodenum
5	chr6:165338600-165341200	Weak transcription	Psoas Muscle	Psoas
6	chr6:165338800-165340800	Weak transcription	Fetal Muscle Leg	muscle
7	chr6:165338800-165341200	Weak transcription	Fetal Muscle Trunk	muscle
8	chr6:165339000-165340800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr6:165339000-165341000	Weak transcription	Skeletal Muscle Male	skeletal muscle
10	chr6:165339000-165341200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr6:165339400-165341000	Enhancers	Brain Substantia Nigra	brain
12	chr6:165339400-165341000	Enhancers	Fetal Brain Female	brain
13	chr6:165339600-165342800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr6:165339800-165341000	Enhancers	Fetal Brain Male	brain
15	chr6:165339800-165341200	Weak transcription	Brain Hippocampus Middle	brain
16	chr6:165339800-165342000	Weak transcription	Gastric	stomach
17	chr6:165340000-165340800	Weak transcription	Brain Anterior Caudate	brain
18	chr6:165340000-165341000	Weak transcription	Fetal Kidney	kidney
19	chr6:165340200-165341200	Weak transcription	Brain Germinal Matrix	brain
20	chr6:165340200-165341200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
21	chr6:165340200-165341200	Weak transcription	Skeletal Muscle Female	skeletal muscle
22	chr6:165340200-165341600	Enhancers	iPS-18 Cell Line	embryonic stem cell
23	chr6:165340400-165341000	Weak transcription	Brain Cingulate Gyrus	brain
24	chr6:165340400-165341200	Weak transcription	Brain Angular Gyrus	brain
25	chr6:165340400-165341200	Weak transcription	Brain Inferior Temporal Lobe	brain

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