Variant report

Variant	rs4896620
Chromosome Location	chr6:143384108-143384109
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:143382100..143384981-chr6:143387320..143388828,2	K562	blood:
2	chr6:143382426..143384220-chr6:143518377..143519949,2	K562	blood:
3	chr6:143384099..143386737-chr6:143410836..143413520,2	K562	blood:

Extended variants
information (count: 19 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs17072160	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17072255	1.00[TSI][hapmap]
rs1855558	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4896612	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57181177	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58257035	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60517501	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6905322	1.00[TSI][hapmap]
rs73777854	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73777862	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73777863	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73777864	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73777865	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9373375	1.00[TSI][hapmap]
rs9386019	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9390059	1.00[TSI][hapmap]
rs9399417	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9399418	0.88[JPT][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9496530	1.00[TSI][hapmap]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4896620	B3GALNT1	trans	lymphoblastoid	seeQTL

Chromatin state (count:59 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:143382600-143385400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr6:143382600-143386200	Weak transcription	Pancreas	Pancrea
3	chr6:143382600-143389200	Weak transcription	Aorta	Aorta
4	chr6:143382600-143426800	Weak transcription	Ovary	ovary
5	chr6:143382800-143384200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr6:143382800-143384200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
7	chr6:143382800-143384200	Enhancers	Adipose Nuclei	Adipose
8	chr6:143382800-143384200	Enhancers	Fetal Heart	heart
9	chr6:143382800-143384400	Flanking Active TSS	K562	blood
10	chr6:143382800-143384600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
11	chr6:143382800-143384800	Enhancers	Skeletal Muscle Male	skeletal muscle
12	chr6:143382800-143385400	Weak transcription	Left Ventricle	heart
13	chr6:143382800-143386000	Enhancers	HSMM	muscle
14	chr6:143382800-143389000	Weak transcription	NH-A	brain
15	chr6:143382800-143394800	Weak transcription	Primary hematopoietic stem cells	blood
16	chr6:143383000-143384200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr6:143383000-143384400	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
18	chr6:143383000-143384400	Enhancers	HSMMtube	muscle
19	chr6:143383000-143384800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr6:143383000-143385400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
21	chr6:143383000-143385400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr6:143383000-143385800	Weak transcription	Primary neutrophils fromperipheralblood	blood
23	chr6:143383000-143386000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
24	chr6:143383000-143386000	Weak transcription	Osteobl	bone
25	chr6:143383200-143384200	Flanking Active TSS	Liver	Liver
26	chr6:143383200-143385000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
27	chr6:143383200-143385400	Enhancers	H9 Cell Line	embryonic stem cell
28	chr6:143383200-143385600	Enhancers	Pancreatic Islets	Pancreatic Islet
29	chr6:143383200-143386000	Weak transcription	Muscle Satellite Cultured Cells	--
30	chr6:143383200-143386600	Enhancers	Fetal Intestine Large	intestine
31	chr6:143383200-143386800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
32	chr6:143383400-143384200	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
33	chr6:143383400-143385000	Enhancers	Breast Myoepithelial Primary Cells	Breast
34	chr6:143383400-143386000	Enhancers	Duodenum Mucosa	Duodenum
35	chr6:143383400-143386400	Enhancers	Fetal Intestine Small	intestine
36	chr6:143383400-143389000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
37	chr6:143383600-143384200	Flanking Active TSS	H1 Cell Line	embryonic stem cell
38	chr6:143383600-143384200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
39	chr6:143383600-143384200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
40	chr6:143383600-143384200	Enhancers	Psoas Muscle	Psoas
41	chr6:143383600-143384200	Enhancers	Right Atrium	heart
42	chr6:143383600-143385600	Enhancers	Skeletal Muscle Female	skeletal muscle
43	chr6:143383600-143386800	Enhancers	HMEC	breast
44	chr6:143383800-143384200	Flanking Active TSS	NHEK	skin
45	chr6:143383800-143385000	Weak transcription	Fetal Kidney	kidney
46	chr6:143383800-143385800	Enhancers	HUES64 Cell Line	embryonic stem cell
47	chr6:143383800-143386000	Weak transcription	Small Intestine	intestine
48	chr6:143383800-143386400	Enhancers	ES-I3 Cell Line	embryonic stem cell
49	chr6:143383800-143387200	Enhancers	HepG2	liver
50	chr6:143383800-143389000	Weak transcription	Brain Hippocampus Middle	brain

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