Variant report

Variant	rs16897554
Chromosome Location	chr8:123868843-123868844
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr8:123864069..123866558-chr8:123868214..123870046,2	K562	blood:
2	chr8:123831387..123833661-chr8:123867785..123869675,2	MCF-7	breast:
3	chr8:123858980..123861253-chr8:123868769..123870806,2	MCF-7	breast:
4	chr8:123790113..123798511-chr8:123863989..123875403,23	MCF-7	breast:
5	chr8:123791121..123796651-chr8:123862934..123872117,20	MCF-7	breast:
6	chr8:123867132..123870851-chr8:123871335..123875366,5	K562	blood:

Variant related genes	Relation type
ENSG00000272043	Chromatin interaction
ENSG00000272384	Chromatin interaction
ENSG00000178764	Chromatin interaction
ENSG00000221542	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs10505426	1.00[EUR][1000 genomes]
rs11990273	1.00[EUR][1000 genomes]
rs16897576	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1992669	1.00[EUR][1000 genomes]
rs60296517	1.00[EUR][1000 genomes]
rs6988421	1.00[EUR][1000 genomes]
rs6993388	1.00[EUR][1000 genomes]
rs7008874	1.00[EUR][1000 genomes]
rs73331728	1.00[EUR][1000 genomes]
rs73331733	1.00[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	nsv1032827	chr8:123668081-124270400	Weak transcription Flanking Active TSS Enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
2	nsv529364	chr8:123763846-124373809	Enhancers Strong transcription Flanking Active TSS Active TSS Weak transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	54 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:97 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:123830200-123874000	Weak transcription	Colonic Mucosa	Colon
2	chr8:123837400-123876000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
3	chr8:123852000-123873400	Weak transcription	Primary T helper cells fromperipheralblood	blood
4	chr8:123853200-123869200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
5	chr8:123853800-123873800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr8:123854000-123874800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr8:123854200-123875000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
8	chr8:123854400-123874400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
9	chr8:123854600-123870200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr8:123855000-123870000	Enhancers	Skeletal Muscle Male	skeletal muscle
11	chr8:123856000-123874800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr8:123857200-123873800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr8:123858800-123873600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr8:123859600-123869200	Weak transcription	Primary neutrophils fromperipheralblood	blood
15	chr8:123860200-123871200	Weak transcription	Gastric	stomach
16	chr8:123860200-123874600	Weak transcription	Thymus	Thymus
17	chr8:123861000-123888600	Weak transcription	GM12878-XiMat	blood
18	chr8:123861200-123869200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
19	chr8:123863000-123871200	Enhancers	Brain Hippocampus Middle	brain
20	chr8:123863000-123872000	Enhancers	Brain Substantia Nigra	brain
21	chr8:123863200-123870400	Strong transcription	Primary T cells from cord blood	blood
22	chr8:123863400-123871200	Weak transcription	Fetal Intestine Small	intestine
23	chr8:123863600-123874600	Weak transcription	Fetal Brain Male	brain
24	chr8:123863800-123870800	Enhancers	NHDF-Ad	bronchial
25	chr8:123864200-123874400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
26	chr8:123864400-123870000	Enhancers	Skeletal Muscle Female	skeletal muscle
27	chr8:123864600-123876400	Weak transcription	Fetal Intestine Large	intestine
28	chr8:123865000-123870200	Weak transcription	HUES6 Cell Line	embryonic stem cell
29	chr8:123865200-123869600	Weak transcription	Primary T helper cells PMA-I stimulated	--
30	chr8:123865200-123869600	Weak transcription	Duodenum Smooth Muscle	Duodenum
31	chr8:123865200-123875200	Weak transcription	Fetal Brain Female	brain
32	chr8:123865400-123870600	Strong transcription	HepG2	liver
33	chr8:123865600-123870200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
34	chr8:123865600-123870400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
35	chr8:123865800-123870000	Weak transcription	Aorta	Aorta
36	chr8:123866200-123869200	Weak transcription	Liver	Liver
37	chr8:123866200-123872000	Enhancers	Psoas Muscle	Psoas
38	chr8:123866200-123874200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
39	chr8:123866400-123869200	Weak transcription	Brain Cingulate Gyrus	brain
40	chr8:123866400-123869400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
41	chr8:123866400-123869600	Weak transcription	Pancreas	Pancrea
42	chr8:123866400-123870000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
43	chr8:123866600-123875800	Weak transcription	Sigmoid Colon	Sigmoid Colon
44	chr8:123866800-123869200	Weak transcription	Spleen	Spleen
45	chr8:123866800-123870600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
46	chr8:123866800-123871800	Enhancers	Adipose Nuclei	Adipose
47	chr8:123867000-123869200	Weak transcription	Esophagus	oesophagus
48	chr8:123867000-123870600	Enhancers	NHLF	lung
49	chr8:123867200-123869200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
50	chr8:123867200-123870600	Enhancers	HSMM	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links