Variant report

Variant	rs28555508
Chromosome Location	chr3:67565327-67565328
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs13318110	0.84[AFR][1000 genomes]
rs13323387	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9812033	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9832485	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9846683	0.88[AFR][1000 genomes]
rs9852077	0.88[AFR][1000 genomes]
rs9867119	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1007093	chr3:67113534-67602973	Weak transcription ZNF genes & repeats Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
2	nsv470638	chr3:67367341-67814738	Weak transcription ZNF genes & repeats Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv460700	chr3:67393629-67712970	Genic enhancers Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv590560	chr3:67393629-67712970	Weak transcription Flanking Bivalent TSS/Enh Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
5	nsv834719	chr3:67396626-67589852	Strong transcription Enhancers Weak transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
6	nsv1012416	chr3:67546244-67615531	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv590561	chr3:67548852-67690626	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:105 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:67488400-67566400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
2	chr3:67500800-67567000	Weak transcription	Pancreas	Pancrea
3	chr3:67508200-67577600	Weak transcription	Spleen	Spleen
4	chr3:67513400-67567800	Weak transcription	NHLF	lung
5	chr3:67521600-67580400	Weak transcription	Stomach Mucosa	stomach
6	chr3:67524200-67567000	Weak transcription	Placenta	Placenta
7	chr3:67526800-67583200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr3:67531400-67576200	Weak transcription	HMEC	breast
9	chr3:67533200-67577000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
10	chr3:67533400-67577600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr3:67534400-67576400	Weak transcription	Aorta	Aorta
12	chr3:67534600-67566200	Weak transcription	Gastric	stomach
13	chr3:67534800-67566200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr3:67535000-67578800	Weak transcription	Brain Hippocampus Middle	brain
15	chr3:67537400-67579600	Weak transcription	Small Intestine	intestine
16	chr3:67537600-67566800	Weak transcription	Duodenum Smooth Muscle	Duodenum
17	chr3:67541400-67582000	Weak transcription	Rectal Smooth Muscle	rectum
18	chr3:67542400-67566400	Weak transcription	NH-A	brain
19	chr3:67543200-67566000	Weak transcription	HUES48 Cell Line	embryonic stem cell
20	chr3:67544200-67580200	Weak transcription	Placenta Amnion	Placenta Amnion
21	chr3:67544400-67567200	Weak transcription	Fetal Muscle Trunk	muscle
22	chr3:67544800-67577600	Weak transcription	Thymus	Thymus
23	chr3:67546600-67566400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
24	chr3:67552000-67566800	Weak transcription	HepG2	liver
25	chr3:67552200-67566200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr3:67553800-67579600	Weak transcription	Hela-S3	cervix
27	chr3:67554600-67577800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
28	chr3:67555400-67566200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
29	chr3:67555800-67566200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
30	chr3:67555800-67567800	Weak transcription	Fetal Muscle Leg	muscle
31	chr3:67555800-67579600	Weak transcription	Brain Cingulate Gyrus	brain
32	chr3:67556000-67566200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
33	chr3:67557400-67583200	Weak transcription	K562	blood
34	chr3:67558400-67571400	Strong transcription	Primary B cells from peripheral blood	blood
35	chr3:67558400-67580200	Weak transcription	Fetal Thymus	thymus
36	chr3:67558800-67567000	Weak transcription	Primary hematopoietic stem cells	blood
37	chr3:67559600-67577600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
38	chr3:67560200-67566000	Weak transcription	HUES6 Cell Line	embryonic stem cell
39	chr3:67560200-67581800	Weak transcription	Colon Smooth Muscle	Colon
40	chr3:67560400-67566200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
41	chr3:67560400-67577600	Weak transcription	Right Ventricle	heart
42	chr3:67560600-67566400	Weak transcription	Left Ventricle	heart
43	chr3:67560600-67566400	Weak transcription	Psoas Muscle	Psoas
44	chr3:67560600-67566600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
45	chr3:67560600-67567000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
46	chr3:67560600-67567000	Weak transcription	Skeletal Muscle Male	skeletal muscle
47	chr3:67560600-67567000	Weak transcription	NHEK	skin
48	chr3:67560600-67576800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
49	chr3:67560600-67580200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
50	chr3:67560600-67586200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links