Variant report

Variant	rs11038350
Chromosome Location	chr11:45221963-45221964
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 13 )
Associated
traits (count: 2 )

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

rs_ID	r²[population]
rs10444286	0.85[JPT][hapmap];0.86[AMR][1000 genomes]
rs10769123	0.84[AMR][1000 genomes]
rs10838428	0.84[AMR][1000 genomes]
rs11038339	1.00[CHB][hapmap];0.85[JPT][hapmap];0.82[AMR][1000 genomes]
rs11038341	0.85[JPT][hapmap];0.88[AMR][1000 genomes]
rs11038357	0.95[CEU][hapmap];0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12284404	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17723470	0.95[CEU][hapmap];0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs3758723	0.95[CEU][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs3886790	0.85[JPT][hapmap];0.81[AMR][1000 genomes]
rs55646648	0.82[AMR][1000 genomes]
rs7940871	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv825852	chr11:45141386-45228580	Bivalent/Poised TSS Genic enhancers Strong transcription Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs11038350	PRDM11	cis	Thyroid	GTEx
rs11038350	SYT13	cis	Thyroid	GTEx

Chromatin state (count:88 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:45202800-45234000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
2	chr11:45203000-45237000	Weak transcription	Small Intestine	intestine
3	chr11:45203400-45230400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr11:45203400-45231000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr11:45203600-45226200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr11:45203600-45231000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
7	chr11:45205200-45230400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr11:45205800-45226400	Weak transcription	Primary T helper cells fromperipheralblood	blood
9	chr11:45205800-45238800	Weak transcription	HSMMtube	muscle
10	chr11:45205800-45251800	Weak transcription	Primary T helper cells PMA-I stimulated	--
11	chr11:45206000-45247800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
12	chr11:45206400-45226000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
13	chr11:45206600-45251600	Weak transcription	HepG2	liver
14	chr11:45207000-45232400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
15	chr11:45207200-45222000	Strong transcription	Fetal Intestine Large	intestine
16	chr11:45207200-45230200	Weak transcription	Colonic Mucosa	Colon
17	chr11:45207600-45229400	Weak transcription	Placenta Amnion	Placenta Amnion
18	chr11:45209000-45235200	Weak transcription	Primary T cells fromperipheralblood	blood
19	chr11:45210000-45226200	Weak transcription	Brain Germinal Matrix	brain
20	chr11:45210000-45234200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
21	chr11:45210200-45224600	Weak transcription	Primary B cells from peripheral blood	blood
22	chr11:45210200-45225800	Weak transcription	Brain Anterior Caudate	brain
23	chr11:45210200-45226400	Weak transcription	Brain Inferior Temporal Lobe	brain
24	chr11:45210200-45227800	Weak transcription	Right Ventricle	heart
25	chr11:45210200-45230200	Weak transcription	Brain Angular Gyrus	brain
26	chr11:45210200-45247600	Weak transcription	H9 Cell Line	embryonic stem cell
27	chr11:45210200-45251600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
28	chr11:45210400-45225600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
29	chr11:45210400-45226000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr11:45210400-45226200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
31	chr11:45210400-45226200	Weak transcription	Duodenum Mucosa	Duodenum
32	chr11:45210400-45226200	Weak transcription	Pancreas	Pancrea
33	chr11:45210400-45229600	Weak transcription	Rectal Mucosa Donor 29	rectum
34	chr11:45210400-45229600	Weak transcription	Rectal Mucosa Donor 31	rectum
35	chr11:45210400-45230400	Weak transcription	Placenta	Placenta
36	chr11:45210400-45230400	Weak transcription	Skeletal Muscle Female	skeletal muscle
37	chr11:45210400-45230600	Weak transcription	Fetal Brain Male	brain
38	chr11:45210400-45230800	Weak transcription	Brain Substantia Nigra	brain
39	chr11:45210400-45230800	Weak transcription	Rectal Smooth Muscle	rectum
40	chr11:45210400-45231200	Weak transcription	HUES48 Cell Line	embryonic stem cell
41	chr11:45210400-45232000	Weak transcription	Hela-S3	cervix
42	chr11:45210600-45226400	Weak transcription	Esophagus	oesophagus
43	chr11:45210600-45229600	Weak transcription	Gastric	stomach
44	chr11:45211000-45226000	Weak transcription	Primary T cells from cord blood	blood
45	chr11:45211800-45223800	Weak transcription	Spleen	Spleen
46	chr11:45211800-45226200	Weak transcription	Adipose Nuclei	Adipose
47	chr11:45211800-45229600	Weak transcription	Skeletal Muscle Male	skeletal muscle
48	chr11:45211800-45230200	Weak transcription	Brain Cingulate Gyrus	brain
49	chr11:45211800-45231000	Weak transcription	Duodenum Smooth Muscle	Duodenum
50	chr11:45212800-45226200	Weak transcription	Liver	Liver

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