Variant report

Variant	rs2715825
Chromosome Location	chr17:67444543-67444544
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 5 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs1972933	0.90[CHB][hapmap];0.93[CHD][hapmap];0.87[GIH][hapmap];0.95[JPT][hapmap];0.95[ASN][1000 genomes]
rs6501326	0.95[CHB][hapmap];0.95[CHD][hapmap];0.87[GIH][hapmap];0.95[JPT][hapmap];0.96[ASN][1000 genomes]
rs9892444	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs9905795	0.95[CHB][hapmap];0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs9912767	0.95[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2715825	CCDC38	trans	parietal	SCAN

Chromatin state (count:77 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:67420000-67447600	Weak transcription	Fetal Thymus	thymus
2	chr17:67420000-67498200	Weak transcription	Thymus	Thymus
3	chr17:67425400-67454600	Weak transcription	Primary B cells from cord blood	blood
4	chr17:67427000-67446800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr17:67439000-67445000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr17:67439600-67444600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
7	chr17:67440800-67444800	Weak transcription	Spleen	Spleen
8	chr17:67440800-67458200	Weak transcription	Right Atrium	heart
9	chr17:67441400-67474600	Weak transcription	Primary T cells fromperipheralblood	blood
10	chr17:67441800-67447000	Weak transcription	Primary T helper cells PMA-I stimulated	--
11	chr17:67442000-67447600	Weak transcription	Primary T helper cells fromperipheralblood	blood
12	chr17:67442200-67444600	Enhancers	Rectal Mucosa Donor 31	rectum
13	chr17:67442600-67446600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
14	chr17:67443000-67444600	Weak transcription	Duodenum Mucosa	Duodenum
15	chr17:67443000-67444600	Weak transcription	Sigmoid Colon	Sigmoid Colon
16	chr17:67443400-67445200	Enhancers	iPS-18 Cell Line	embryonic stem cell
17	chr17:67443600-67444600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
18	chr17:67443600-67444800	Enhancers	HUES48 Cell Line	embryonic stem cell
19	chr17:67443600-67444800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr17:67443600-67445200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
21	chr17:67443600-67445200	Enhancers	Fetal Muscle Trunk	muscle
22	chr17:67443600-67445400	Enhancers	Fetal Stomach	stomach
23	chr17:67443600-67445800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
24	chr17:67443800-67444600	Enhancers	Breast Myoepithelial Primary Cells	Breast
25	chr17:67443800-67444600	Enhancers	Colon Smooth Muscle	Colon
26	chr17:67443800-67444600	Enhancers	Ovary	ovary
27	chr17:67443800-67444600	Enhancers	Psoas Muscle	Psoas
28	chr17:67443800-67444600	Enhancers	Rectal Mucosa Donor 29	rectum
29	chr17:67443800-67444800	Enhancers	H1 Cell Line	embryonic stem cell
30	chr17:67443800-67444800	Enhancers	HUES64 Cell Line	embryonic stem cell
31	chr17:67443800-67444800	Enhancers	iPS-15b Cell Line	embryonic stem cell
32	chr17:67443800-67445000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr17:67443800-67445200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
34	chr17:67443800-67445200	Enhancers	Fetal Lung	lung
35	chr17:67443800-67445200	Enhancers	Fetal Muscle Leg	muscle
36	chr17:67443800-67445200	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
37	chr17:67443800-67445200	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
38	chr17:67443800-67445400	Enhancers	Colonic Mucosa	Colon
39	chr17:67444000-67444600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
40	chr17:67444000-67444600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
41	chr17:67444000-67444600	Enhancers	NH-A	brain
42	chr17:67444000-67445000	Enhancers	Brain Germinal Matrix	brain
43	chr17:67444000-67445000	Enhancers	Fetal Brain Female	brain
44	chr17:67444000-67445200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
45	chr17:67444000-67445200	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
46	chr17:67444000-67445200	Flanking Active TSS	Brain Anterior Caudate	brain
47	chr17:67444000-67445200	Enhancers	Fetal Kidney	kidney
48	chr17:67444000-67445200	Enhancers	Left Ventricle	heart
49	chr17:67444000-67447000	Weak transcription	GM12878-XiMat	blood
50	chr17:67444200-67444600	Flanking Active TSS	ES-I3 Cell Line	embryonic stem cell

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