Variant report

Variant	rs4896675
Chromosome Location	chr6:144166535-144166536
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:143827995..143830222-chr6:144165832..144168637,2	K562	blood:
2	chr6:143997746..143999357-chr6:144166227..144168213,2	K562	blood:
3	chr6:144166292..144169400-chr6:144179889..144182426,4	K562	blood:
4	chr6:144166292..144167836-chr6:144180570..144182426,2	K562	blood:

Variant related genes	Relation type
ENSG00000112419	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs12526647	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12527533	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12527718	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12527740	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs35274932	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4895623	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4896677	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4896681	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4896685	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs58337361	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs764667	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7755147	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3408554	chr6:144106707-144369589	Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
2	nsv1034894	chr6:144148566-144170036	Active TSS Flanking Active TSS Weak transcription Genic enhancers Bivalent/Poised TSS Strong transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA target site	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:144165200-144169800	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr6:144165400-144166600	Enhancers	Primary monocytes fromperipheralblood	blood
3	chr6:144165400-144166600	Weak transcription	Gastric	stomach
4	chr6:144165400-144166800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr6:144165400-144168200	Weak transcription	Esophagus	oesophagus
6	chr6:144165400-144168400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr6:144165400-144172800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr6:144165400-144178400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr6:144165600-144166600	Weak transcription	Colon Smooth Muscle	Colon
10	chr6:144165600-144166800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr6:144165600-144166800	Genic enhancers	Fetal Muscle Leg	muscle
12	chr6:144165600-144167400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr6:144165600-144169000	Weak transcription	Right Ventricle	heart
14	chr6:144165600-144172200	Weak transcription	Right Atrium	heart
15	chr6:144165600-144172600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
16	chr6:144165600-144172600	Strong transcription	Sigmoid Colon	Sigmoid Colon
17	chr6:144165600-144173600	Strong transcription	Placenta	Placenta
18	chr6:144165600-144175800	Weak transcription	Fetal Heart	heart
19	chr6:144165600-144175800	Weak transcription	Pancreatic Islets	Pancreatic Islet
20	chr6:144165600-144178400	Weak transcription	Stomach Mucosa	stomach
21	chr6:144165600-144186800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
22	chr6:144165800-144166600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
23	chr6:144165800-144166800	Genic enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr6:144165800-144166800	Genic enhancers	Primary T cells fromperipheralblood	blood
25	chr6:144165800-144167000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
26	chr6:144165800-144167000	Weak transcription	Brain Inferior Temporal Lobe	brain
27	chr6:144165800-144167400	Genic enhancers	HepG2	liver
28	chr6:144165800-144169600	Weak transcription	Small Intestine	intestine
29	chr6:144165800-144172000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr6:144165800-144172200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
31	chr6:144165800-144172200	Strong transcription	HUES64 Cell Line	embryonic stem cell
32	chr6:144165800-144172600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
33	chr6:144165800-144172600	Strong transcription	Fetal Stomach	stomach
34	chr6:144165800-144172800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
35	chr6:144165800-144172800	Strong transcription	Cortex derived primary cultured neurospheres	brain
36	chr6:144165800-144172800	Strong transcription	Osteobl	bone
37	chr6:144165800-144173600	Strong transcription	HUES48 Cell Line	embryonic stem cell
38	chr6:144165800-144173600	Strong transcription	Skeletal Muscle Male	skeletal muscle
39	chr6:144165800-144174200	Strong transcription	HUES6 Cell Line	embryonic stem cell
40	chr6:144165800-144175400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
41	chr6:144166000-144166600	Genic enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
42	chr6:144166000-144166600	Transcr. at gene 5' and 3'	Dnd41	blood
43	chr6:144166000-144166800	Transcr. at gene 5' and 3'	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
44	chr6:144166000-144168600	Strong transcription	Brain Cingulate Gyrus	brain
45	chr6:144166000-144169800	Strong transcription	Placenta Amnion	Placenta Amnion
46	chr6:144166000-144170000	Strong transcription	iPS-15b Cell Line	embryonic stem cell
47	chr6:144166000-144170000	Strong transcription	Fetal Brain Male	brain
48	chr6:144166000-144170000	Strong transcription	Hela-S3	cervix
49	chr6:144166000-144170400	Strong transcription	Fetal Kidney	kidney
50	chr6:144166000-144171800	Weak transcription	Psoas Muscle	Psoas

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links