Variant report

Variant	rs16906884
Chromosome Location	chr11:9621890-9621891
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:9620438..9623040-chr11:9627424..9629969,2	K562	blood:
2	chr11:9616144..9619684-chr11:9621223..9625658,6	K562	blood:

Variant related genes	Relation type
ENSG00000243964	Chromatin interaction

Extended variants
information (count: 6 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs16906887	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55818048	1.00[EUR][1000 genomes]
rs7933311	0.80[AFR][1000 genomes]
rs7950271	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];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	nsv427882	chr11:9431600-9626580	Genic enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Active TSS Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	77 gene(s)	inside rSNPs	diseases
2	nsv553467	chr11:9518551-9648721	Weak transcription Enhancers Strong transcription Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs16906884	NOTUM	trans	lymphoblastoid	seeQTL
rs16906884	TDRD9	trans	lymphoblastoid	seeQTL

Chromatin state (count:90 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:9597000-9622000	Weak transcription	Spleen	Spleen
2	chr11:9597200-9635000	Weak transcription	Pancreas	Pancrea
3	chr11:9599600-9622800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
4	chr11:9599800-9622400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
5	chr11:9601400-9622600	Weak transcription	Right Atrium	heart
6	chr11:9601600-9622200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
7	chr11:9607000-9622400	Weak transcription	Small Intestine	intestine
8	chr11:9607800-9622600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr11:9610200-9622600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
10	chr11:9610600-9622200	Weak transcription	Primary T cells from cord blood	blood
11	chr11:9610600-9622200	Weak transcription	Lung	lung
12	chr11:9610600-9622600	Weak transcription	Colonic Mucosa	Colon
13	chr11:9610600-9622600	Weak transcription	Esophagus	oesophagus
14	chr11:9610600-9622600	Weak transcription	Thymus	Thymus
15	chr11:9610600-9622800	Weak transcription	Right Ventricle	heart
16	chr11:9610600-9627200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr11:9610600-9635000	Weak transcription	Aorta	Aorta
18	chr11:9610800-9622200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
19	chr11:9610800-9622200	Weak transcription	Adipose Nuclei	Adipose
20	chr11:9610800-9622600	Weak transcription	Brain Germinal Matrix	brain
21	chr11:9610800-9622600	Weak transcription	Sigmoid Colon	Sigmoid Colon
22	chr11:9611000-9622000	Weak transcription	NHEK	skin
23	chr11:9611000-9622200	Weak transcription	Rectal Mucosa Donor 29	rectum
24	chr11:9611000-9622600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
25	chr11:9611200-9622600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
26	chr11:9611200-9622600	Weak transcription	K562	blood
27	chr11:9611200-9622800	Weak transcription	Rectal Mucosa Donor 31	rectum
28	chr11:9611400-9622600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr11:9611400-9623400	Weak transcription	Fetal Lung	lung
30	chr11:9611600-9622200	Weak transcription	Muscle Satellite Cultured Cells	--
31	chr11:9611600-9622400	Weak transcription	Stomach Smooth Muscle	stomach
32	chr11:9611600-9622600	Weak transcription	Cortex derived primary cultured neurospheres	brain
33	chr11:9611600-9622600	Weak transcription	Placenta Amnion	Placenta Amnion
34	chr11:9611800-9622200	Weak transcription	Duodenum Mucosa	Duodenum
35	chr11:9611800-9622600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
36	chr11:9612000-9623200	Weak transcription	Liver	Liver
37	chr11:9612200-9622600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
38	chr11:9612200-9622800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
39	chr11:9612200-9622800	Weak transcription	Fetal Intestine Small	intestine
40	chr11:9612400-9622000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
41	chr11:9612400-9622000	Weak transcription	Monocytes-CD14+_RO01746	blood
42	chr11:9612400-9622200	Weak transcription	Fetal Thymus	thymus
43	chr11:9612400-9622200	Weak transcription	HSMM	muscle
44	chr11:9612400-9622600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr11:9612400-9622600	Weak transcription	Fetal Intestine Large	intestine
46	chr11:9612400-9622800	Weak transcription	Duodenum Smooth Muscle	Duodenum
47	chr11:9612600-9622600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr11:9612600-9623000	Weak transcription	HUVEC	blood vessel
49	chr11:9613000-9622600	Weak transcription	Primary neutrophils fromperipheralblood	blood
50	chr11:9616200-9622800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links