Variant report

Variant	rs1408256
Chromosome Location	chr6:35131599-35131600
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:7)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:7 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:35123069..35125917-chr6:35131448..35134859,3	K562	blood:
2	chr6:35131417..35136766-chr6:35169545..35174762,6	MCF-7	breast:
3	chr6:35127079..35138793-chr6:35145525..35157743,32	MCF-7	breast:
4	chr6:35126225..35131731-chr6:35132022..35136988,7	MCF-7	breast:
5	chr6:35119907..35121608-chr6:35130081..35132531,2	MCF-7	breast:
6	chr6:35115116..35116634-chr6:35129312..35132110,2	MCF-7	breast:
7	chr6:35129806..35132792-chr6:35197170..35199424,2	MCF-7	breast:

(count:1 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ANKS1A-1	chr6:35127447-35132003	ENSG00000244904

No data

Variant related genes	Relation type
ENSG00000124678	Chromatin interaction

Extended variants
information (count: 28 )
Associated
traits (count: 6 )

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10456078	0.90[EUR][1000 genomes]
rs10484578	0.85[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap]
rs10807147	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10807148	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10947538	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12191117	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12191184	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12191808	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12192566	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12527639	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12663320	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1535814	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17539666	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1886242	0.92[CEU][hapmap];0.86[TSI][hapmap];0.90[EUR][1000 genomes]
rs1886243	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2038740	0.80[CEU][hapmap]
rs2181795	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3800402	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4711406	0.87[CEU][hapmap];0.87[CHB][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62404566	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62404583	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6457805	0.92[CEU][hapmap];0.90[EUR][1000 genomes]
rs6915627	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6923951	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.97[MKK][hapmap];0.91[TSI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9296143	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9348968	0.89[EUR][1000 genomes]
rs9357195	0.89[EUR][1000 genomes]
rs9368849	0.92[CEU][hapmap];0.86[TSI][hapmap];0.90[EUR][1000 genomes]

mRNA abundance (count:6)

SNP	Gene	Cis/trans	Tissue	Source
rs1408256	TULP1	cis	parietal	SCAN
rs1408256	NUDT3	cis	parietal	SCAN
rs1408256	HCK	trans	lymphoblastoid	seeQTL
rs1408256	DEF6	cis	multi-tissue	Pritchard
rs1408256	TWSG1	trans	lymphoblastoid	seeQTL
rs1408256	MAPK13	cis	lymphoblastoid	seeQTL

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:35118600-35132200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr6:35128600-35133200	Weak transcription	Esophagus	oesophagus
3	chr6:35128600-35133800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr6:35128600-35137400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr6:35128800-35137400	Weak transcription	Brain Angular Gyrus	brain
6	chr6:35129200-35133200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr6:35130000-35133600	Weak transcription	Fetal Stomach	stomach
8	chr6:35130200-35133400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr6:35130200-35136000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr6:35130400-35132800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr6:35130400-35133200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr6:35130400-35133200	Weak transcription	Fetal Kidney	kidney
13	chr6:35130400-35134000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr6:35130600-35132200	Weak transcription	Stomach Mucosa	stomach
15	chr6:35130600-35132800	Weak transcription	Muscle Satellite Cultured Cells	--
16	chr6:35130600-35132800	Weak transcription	Osteobl	bone
17	chr6:35130600-35133000	Weak transcription	NHDF-Ad	bronchial
18	chr6:35130600-35133200	Weak transcription	Adipose Nuclei	Adipose
19	chr6:35130600-35141400	Weak transcription	Brain Substantia Nigra	brain
20	chr6:35130800-35132000	Weak transcription	Fetal Lung	lung
21	chr6:35130800-35132600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr6:35130800-35132800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr6:35130800-35133400	Enhancers	HepG2	liver
24	chr6:35130800-35136200	Weak transcription	Left Ventricle	heart
25	chr6:35131000-35132200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr6:35131000-35133200	Weak transcription	Aorta	Aorta
27	chr6:35131000-35133200	Weak transcription	Pancreas	Pancrea
28	chr6:35131000-35137400	Weak transcription	Lung	lung
29	chr6:35131200-35133800	Weak transcription	Gastric	stomach
30	chr6:35131400-35131800	Weak transcription	Liver	Liver

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