Variant report

Variant	rs62396181
Chromosome Location	chr6:26140669-26140670
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs17531978	0.91[ASN][1000 genomes]
rs17596719	0.82[ASN][1000 genomes]
rs3819406	0.81[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs62396167	0.84[ASN][1000 genomes]
rs72834678	0.84[ASN][1000 genomes]
rs72834689	0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:18 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1029920	chr6:25638507-26585842	Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Enhancers Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1215 gene(s)	inside rSNPs	diseases
2	nsv538162	chr6:25638507-26585842	Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Weak transcription Strong transcription Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1215 gene(s)	inside rSNPs	diseases
3	nsv1030351	chr6:25813178-26352046	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1189 gene(s)	inside rSNPs	diseases
4	nsv1023453	chr6:25853830-26528250	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1201 gene(s)	inside rSNPs	diseases
5	nsv1025237	chr6:25874326-26280867	Flanking Active TSS Active TSS Enhancers Weak transcription Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1166 gene(s)	inside rSNPs	diseases
6	nsv538163	chr6:25874326-26280867	Enhancers Flanking Active TSS Strong transcription Active TSS Weak transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1166 gene(s)	inside rSNPs	diseases
7	nsv1028456	chr6:25984457-26174993	Active TSS Flanking Active TSS Enhancers Weak transcription Bivalent/Poised TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	873 gene(s)	inside rSNPs	diseases
8	nsv538165	chr6:25984457-26174993	Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS Enhancers Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	873 gene(s)	inside rSNPs	diseases
9	nsv428137	chr6:25987413-26351920	Enhancers Flanking Active TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1181 gene(s)	inside rSNPs	diseases
10	nsv916992	chr6:25991630-26280921	Active TSS Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1159 gene(s)	inside rSNPs	diseases
11	nsv1028232	chr6:26005449-26319756	Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Weak transcription Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1171 gene(s)	inside rSNPs	diseases
12	nsv870314	chr6:26008435-26280807	Flanking Active TSS Enhancers Active TSS Genic enhancers Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1151 gene(s)	inside rSNPs	diseases
13	nsv1023457	chr6:26014014-26305407	Active TSS Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1170 gene(s)	inside rSNPs	diseases
14	nsv1025493	chr6:26026870-26223838	Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1001 gene(s)	inside rSNPs	diseases
15	nsv1023979	chr6:26026870-26287399	Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Weak transcription Transcr. at gene 5' and 3' Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1113 gene(s)	inside rSNPs	diseases
16	nsv1015782	chr6:26026870-26323895	Active TSS Weak transcription Flanking Active TSS Enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1114 gene(s)	inside rSNPs	diseases
17	nsv1018665	chr6:26026870-26352046	Flanking Active TSS Weak transcription Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1116 gene(s)	inside rSNPs	diseases
18	nsv482348	chr6:26082709-26261136	Enhancers Flanking Active TSS Active TSS Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	799 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs62396181	TRIM38	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:98 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:26127000-26141600	Weak transcription	Gastric	stomach
2	chr6:26127800-26141800	Weak transcription	HUES64 Cell Line	embryonic stem cell
3	chr6:26127800-26143000	Weak transcription	NH-A	brain
4	chr6:26128000-26141000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr6:26128200-26140800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr6:26128800-26141200	Weak transcription	Fetal Brain Male	brain
7	chr6:26129000-26140800	Weak transcription	NHLF	lung
8	chr6:26129000-26143400	Weak transcription	Fetal Lung	lung
9	chr6:26129800-26141000	Genic enhancers	Primary neutrophils fromperipheralblood	blood
10	chr6:26130400-26141400	Weak transcription	Fetal Kidney	kidney
11	chr6:26130400-26141600	Weak transcription	HUES48 Cell Line	embryonic stem cell
12	chr6:26130400-26144000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
13	chr6:26130600-26141400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
14	chr6:26130600-26142600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
15	chr6:26130600-26155600	Weak transcription	Right Atrium	heart
16	chr6:26130800-26141600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr6:26131200-26146000	Weak transcription	Rectal Smooth Muscle	rectum
18	chr6:26131400-26140800	Weak transcription	Cortex derived primary cultured neurospheres	brain
19	chr6:26131400-26141200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
20	chr6:26131400-26143000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
21	chr6:26131400-26144200	Weak transcription	NHEK	skin
22	chr6:26131400-26152400	Weak transcription	HMEC	breast
23	chr6:26131600-26140800	Strong transcription	Fetal Intestine Large	intestine
24	chr6:26131600-26156000	Weak transcription	Esophagus	oesophagus
25	chr6:26131800-26141400	Weak transcription	Pancreas	Pancrea
26	chr6:26131800-26142600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
27	chr6:26132000-26155200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr6:26132200-26141400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
29	chr6:26132200-26143000	Weak transcription	Small Intestine	intestine
30	chr6:26132800-26144000	Weak transcription	Colon Smooth Muscle	Colon
31	chr6:26133000-26142600	Weak transcription	Placenta Amnion	Placenta Amnion
32	chr6:26133800-26141200	Strong transcription	Duodenum Mucosa	Duodenum
33	chr6:26134200-26141200	Strong transcription	Fetal Thymus	thymus
34	chr6:26134600-26141400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
35	chr6:26135000-26142000	Strong transcription	Thymus	Thymus
36	chr6:26135600-26140800	Strong transcription	K562	blood
37	chr6:26135600-26141400	Weak transcription	Skeletal Muscle Male	skeletal muscle
38	chr6:26136800-26140800	Weak transcription	Primary T helper cells fromperipheralblood	blood
39	chr6:26136800-26140800	Strong transcription	Liver	Liver
40	chr6:26136800-26141000	Weak transcription	Pancreatic Islets	Pancreatic Islet
41	chr6:26136800-26141200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
42	chr6:26136800-26149600	Weak transcription	A549	lung
43	chr6:26137200-26140800	Strong transcription	Primary B cells from peripheral blood	blood
44	chr6:26137400-26141000	Strong transcription	Monocytes-CD14+_RO01746	blood
45	chr6:26137400-26141400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
46	chr6:26137600-26143200	Strong transcription	Primary T cells from cord blood	blood
47	chr6:26137600-26144200	Strong transcription	Primary B cells from cord blood	blood
48	chr6:26137800-26141200	Strong transcription	Placenta	Placenta
49	chr6:26138000-26140800	Strong transcription	Skeletal Muscle Female	skeletal muscle
50	chr6:26138200-26140800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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