Variant report

Variant	rs62396148
Chromosome Location	chr6:15552920-15552921
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	MXI1	chr6:15551774-15552961	SK-N-SH	brain:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr6:15545587..15549018-chr6:15549225..15553433,4	K562	blood:
2	chr6:15551478..15555185-chr6:15568450..15571050,3	K562	blood:
3	chr6:15551863..15553566-chr6:15629613..15631115,2	K562	blood:

Variant related genes	Relation type
DTNBP1	TF binding region
ENSG00000047579	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs1123073	1.00[ASN][1000 genomes]
rs17391774	1.00[ASN][1000 genomes]
rs17576261	1.00[ASN][1000 genomes]
rs2619536	1.00[ASN][1000 genomes]
rs2743851	1.00[ASN][1000 genomes]
rs2743852	1.00[ASN][1000 genomes]
rs2743873	1.00[ASN][1000 genomes]
rs2769561	1.00[ASN][1000 genomes]
rs2769562	1.00[ASN][1000 genomes]
rs2769563	1.00[ASN][1000 genomes]
rs2769567	1.00[ASN][1000 genomes]
rs34326651	1.00[ASN][1000 genomes]
rs34765387	1.00[ASN][1000 genomes]
rs62395006	1.00[ASN][1000 genomes]
rs62395016	1.00[ASN][1000 genomes]
rs62396141	1.00[ASN][1000 genomes]
rs62396142	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6908299	1.00[ASN][1000 genomes]
rs6913257	1.00[ASN][1000 genomes]
rs742206	1.00[ASN][1000 genomes]
rs742207	1.00[ASN][1000 genomes]
rs742208	1.00[ASN][1000 genomes]
rs7756793	1.00[ASN][1000 genomes]
rs9283925	1.00[ASN][1000 genomes]
rs9296975	1.00[ASN][1000 genomes]
rs9464816	1.00[ASN][1000 genomes]
rs9464817	1.00[ASN][1000 genomes]
rs9464819	1.00[ASN][1000 genomes]
rs9476890	1.00[ASN][1000 genomes]
rs9476894	1.00[ASN][1000 genomes]
rs9476897	1.00[ASN][1000 genomes]
rs9476899	1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv428473	chr6:15522653-15595739	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:55 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15525000-15553400	Weak transcription	Ovary	ovary
2	chr6:15534400-15609800	Weak transcription	Thymus	Thymus
3	chr6:15537000-15554400	Weak transcription	Fetal Intestine Large	intestine
4	chr6:15539800-15554000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr6:15545000-15554200	Weak transcription	Monocytes-CD14+_RO01746	blood
6	chr6:15547400-15563200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
7	chr6:15548000-15553800	Weak transcription	NHLF	lung
8	chr6:15549600-15553600	Enhancers	Primary B cells from peripheral blood	blood
9	chr6:15549800-15554000	Enhancers	iPS-20b Cell Line	embryonic stem cell
10	chr6:15549800-15554400	Enhancers	iPS-15b Cell Line	embryonic stem cell
11	chr6:15549800-15554400	Enhancers	iPS-18 Cell Line	embryonic stem cell
12	chr6:15550400-15556400	Weak transcription	Rectal Mucosa Donor 29	rectum
13	chr6:15550600-15554400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
14	chr6:15550800-15553000	Enhancers	Primary hematopoietic stem cells	blood
15	chr6:15550800-15553000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr6:15551000-15553200	Enhancers	HUVEC	blood vessel
17	chr6:15551000-15553600	Enhancers	Left Ventricle	heart
18	chr6:15551200-15554200	Enhancers	HUES64 Cell Line	embryonic stem cell
19	chr6:15551200-15554800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
20	chr6:15552000-15555000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
21	chr6:15552000-15556800	Weak transcription	Primary T cells fromperipheralblood	blood
22	chr6:15552200-15553000	Weak transcription	Rectal Smooth Muscle	rectum
23	chr6:15552200-15553200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
24	chr6:15552200-15553200	Weak transcription	Fetal Muscle Trunk	muscle
25	chr6:15552200-15555000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
26	chr6:15552200-15555000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
27	chr6:15552200-15555200	Enhancers	K562	blood
28	chr6:15552200-15556600	Weak transcription	Esophagus	oesophagus
29	chr6:15552200-15569200	Weak transcription	Sigmoid Colon	Sigmoid Colon
30	chr6:15552400-15553400	Weak transcription	H9 Cell Line	embryonic stem cell
31	chr6:15552400-15553400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr6:15552400-15553600	Weak transcription	Brain Inferior Temporal Lobe	brain
33	chr6:15552400-15554000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
34	chr6:15552400-15555600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
35	chr6:15552400-15556200	Weak transcription	H1 Cell Line	embryonic stem cell
36	chr6:15552400-15556800	Weak transcription	Spleen	Spleen
37	chr6:15552400-15563000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
38	chr6:15552400-15571800	Weak transcription	Fetal Intestine Small	intestine
39	chr6:15552400-15574200	Weak transcription	Primary T cells from cord blood	blood
40	chr6:15552400-15577400	Weak transcription	Lung	lung
41	chr6:15552400-15578200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
42	chr6:15552600-15553000	Weak transcription	HUES6 Cell Line	embryonic stem cell
43	chr6:15552600-15553400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
44	chr6:15552600-15553400	Weak transcription	Fetal Stomach	stomach
45	chr6:15552600-15554000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
46	chr6:15552600-15554000	Weak transcription	Aorta	Aorta
47	chr6:15552600-15555000	Weak transcription	Skeletal Muscle Female	skeletal muscle
48	chr6:15552600-15556800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr6:15552600-15557000	Weak transcription	Fetal Heart	heart
50	chr6:15552600-15568800	Weak transcription	Fetal Kidney	kidney

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links