Variant report

Variant	rs7756225
Chromosome Location	chr6:88277558-88277559
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:88276178..88278517-chr6:88285720..88288387,2	K562	blood:
2	chr6:88275961..88278697-chr6:88284157..88285925,2	K562	blood:
3	chr6:88273263..88275318-chr6:88275795..88277791,2	MCF-7	breast:
4	chr6:88277452..88280023-chr6:88298199..88301235,3	MCF-7	breast:
5	chr6:88276251..88278746-chr6:88282738..88284494,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000135336	Chromatin interaction
ENSG00000146282	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10755484	0.81[ASN][1000 genomes]
rs3934838	0.81[ASN][1000 genomes]
rs4334949	0.81[ASN][1000 genomes]
rs4587143	0.81[ASN][1000 genomes]
rs4707373	0.81[ASN][1000 genomes]
rs4707374	0.81[ASN][1000 genomes]
rs4707376	0.82[ASN][1000 genomes]
rs4707377	0.80[ASN][1000 genomes]
rs6906769	0.81[ASN][1000 genomes]
rs6916732	0.81[ASN][1000 genomes]
rs6918909	0.81[ASN][1000 genomes]
rs6940150	0.81[ASN][1000 genomes]
rs7742965	0.80[ASN][1000 genomes]
rs7757636	0.80[ASN][1000 genomes]
rs7762864	0.81[ASN][1000 genomes]
rs7773906	0.81[ASN][1000 genomes]
rs9444519	0.81[ASN][1000 genomes]
rs9450732	0.81[ASN][1000 genomes]
rs9450733	0.80[ASN][1000 genomes]
rs9450738	0.80[ASN][1000 genomes]
rs9450744	0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1031961	chr6:88110401-88367006	Weak transcription Strong transcription Flanking Active TSS Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
2	nsv1031460	chr6:88153079-88410050	Weak transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
3	nsv1026482	chr6:88164934-88409728	Weak transcription Strong transcription Active TSS Flanking Active TSS Genic enhancers Enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
4	nsv1027706	chr6:88168987-88409728	Genic enhancers Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
5	nsv538354	chr6:88273858-88311606	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs7756225	SLC35A1	Cis_1M	lymphoblastoid	RTeQTL
rs7756225	SLC35A1	cis	brain	BrainEAC

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:88217800-88295800	Weak transcription	Fetal Brain Male	brain
2	chr6:88227800-88298800	Weak transcription	Esophagus	oesophagus
3	chr6:88228400-88298400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr6:88228600-88285200	Weak transcription	Spleen	Spleen
5	chr6:88229600-88289000	Weak transcription	Lung	lung
6	chr6:88250600-88281600	Strong transcription	Monocytes-CD14+_RO01746	blood
7	chr6:88251000-88281800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr6:88251000-88291400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr6:88251200-88280000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr6:88251200-88280600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr6:88251200-88284800	Weak transcription	Stomach Mucosa	stomach
12	chr6:88254200-88283600	Weak transcription	Pancreatic Islets	Pancreatic Islet
13	chr6:88256000-88284000	Weak transcription	Psoas Muscle	Psoas
14	chr6:88256200-88297600	Weak transcription	Right Ventricle	heart
15	chr6:88256400-88295800	Weak transcription	Gastric	stomach
16	chr6:88259600-88279800	Strong transcription	Primary B cells from peripheral blood	blood
17	chr6:88260200-88277800	Weak transcription	NHEK	skin
18	chr6:88262400-88279400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr6:88263200-88282200	Weak transcription	Small Intestine	intestine
20	chr6:88263400-88291400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr6:88264600-88282800	Weak transcription	Aorta	Aorta
22	chr6:88264600-88291000	Weak transcription	Brain Angular Gyrus	brain
23	chr6:88268000-88279200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr6:88269400-88278400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
25	chr6:88269600-88291400	Weak transcription	H9 Cell Line	embryonic stem cell
26	chr6:88270400-88278600	Strong transcription	Primary T cells fromperipheralblood	blood
27	chr6:88271400-88279600	Strong transcription	HUES64 Cell Line	embryonic stem cell
28	chr6:88271400-88288200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
29	chr6:88271600-88279400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
30	chr6:88271600-88288800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
31	chr6:88271600-88288800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
32	chr6:88272200-88297000	Weak transcription	Brain Germinal Matrix	brain
33	chr6:88272400-88282000	Weak transcription	Rectal Smooth Muscle	rectum
34	chr6:88272400-88284800	Weak transcription	Pancreas	Pancrea
35	chr6:88272400-88289200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr6:88272400-88291000	Weak transcription	Fetal Brain Female	brain
37	chr6:88272400-88296000	Weak transcription	Placenta Amnion	Placenta Amnion
38	chr6:88272400-88297400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
39	chr6:88272400-88297400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
40	chr6:88272600-88281400	Weak transcription	HUVEC	blood vessel
41	chr6:88272600-88282800	Weak transcription	Thymus	Thymus
42	chr6:88272600-88283400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
43	chr6:88272600-88291200	Weak transcription	HSMMtube	muscle
44	chr6:88272600-88292000	Weak transcription	Cortex derived primary cultured neurospheres	brain
45	chr6:88272800-88278000	Weak transcription	A549	lung
46	chr6:88272800-88281600	Weak transcription	Colon Smooth Muscle	Colon
47	chr6:88272800-88283800	Weak transcription	Brain Hippocampus Middle	brain
48	chr6:88272800-88289800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
49	chr6:88272800-88291000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
50	chr6:88273000-88282200	Weak transcription	Left Ventricle	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links