Variant report

Variant	rs16878414
Chromosome Location	chr5:80375159-80375160
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs10514203	0.93[ASW][hapmap];0.85[CEU][hapmap];0.81[GIH][hapmap];0.84[LWK][hapmap];0.97[MKK][hapmap];0.91[TSI][hapmap];0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13162418	0.82[CEU][hapmap]
rs13183094	0.82[CEU][hapmap]
rs13183890	0.82[CEU][hapmap]
rs13184251	0.82[CEU][hapmap]
rs17211275	0.94[EUR][1000 genomes]
rs6869328	0.86[MEX][hapmap];0.81[TSI][hapmap];0.81[EUR][1000 genomes]
rs6888990	0.82[CEU][hapmap]

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	nsv1024844	chr5:79862428-80860430	Weak transcription Strong transcription Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv830360	chr5:80283278-80446040	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:80338200-80376200	Weak transcription	NHLF	lung
2	chr5:80343200-80394400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr5:80344800-80382600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr5:80353600-80375400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
5	chr5:80354200-80382400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr5:80364200-80384200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
7	chr5:80364200-80386200	Weak transcription	H1 Cell Line	embryonic stem cell
8	chr5:80364600-80382800	Weak transcription	Gastric	stomach
9	chr5:80368800-80384200	Strong transcription	Primary T cells fromperipheralblood	blood
10	chr5:80371000-80375600	Weak transcription	HUES48 Cell Line	embryonic stem cell
11	chr5:80371600-80376200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr5:80371600-80376200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
13	chr5:80372000-80379000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
14	chr5:80372800-80377600	Strong transcription	Primary T helper naive cells from peripheral blood	blood
15	chr5:80373000-80383600	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
16	chr5:80373800-80393600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr5:80374200-80375400	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr5:80374200-80375400	ZNF genes & repeats	Primary T helper cells fromperipheralblood	blood
19	chr5:80374200-80375400	ZNF genes & repeats	Brain Cingulate Gyrus	brain
20	chr5:80374200-80375400	ZNF genes & repeats	Brain Hippocampus Middle	brain
21	chr5:80374200-80375400	ZNF genes & repeats	Brain Substantia Nigra	brain
22	chr5:80374400-80375400	ZNF genes & repeats	IMR90 fetal lung fibroblasts Cell Line	lung
23	chr5:80374400-80375400	ZNF genes & repeats	Adipose Nuclei	Adipose
24	chr5:80374400-80384800	Strong transcription	HepG2	liver
25	chr5:80374600-80375400	ZNF genes & repeats	Primary T regulatory cells fromperipheralblood	blood
26	chr5:80374600-80375400	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain
27	chr5:80374600-80375400	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin03	Skin
28	chr5:80374600-80375600	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
29	chr5:80374600-80377200	Strong transcription	H9 Cell Line	embryonic stem cell
30	chr5:80374800-80376400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
31	chr5:80374800-80382600	Weak transcription	Fetal Intestine Large	intestine
32	chr5:80375000-80376000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
33	chr5:80375000-80376000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
34	chr5:80375000-80376000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
35	chr5:80375000-80376000	Weak transcription	Ovary	ovary
36	chr5:80375000-80376200	Weak transcription	Brain Inferior Temporal Lobe	brain
37	chr5:80375000-80376200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
38	chr5:80375000-80376800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
39	chr5:80375000-80377600	Strong transcription	Primary T helper cells PMA-I stimulated	--
40	chr5:80375000-80382400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
41	chr5:80375000-80382800	Weak transcription	Fetal Intestine Small	intestine
42	chr5:80375000-80382800	Weak transcription	Spleen	Spleen
43	chr5:80375000-80384400	Strong transcription	Primary T cells from cord blood	blood
44	chr5:80375000-80384400	Weak transcription	Duodenum Mucosa	Duodenum
45	chr5:80375000-80422600	Weak transcription	Left Ventricle	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links