Variant report

Variant	rs1340865
Chromosome Location	chr1:225631404-225631405
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:225614314..225616922-chr1:225629098..225631465,3	MCF-7	breast:
2	chr1:225614179..225618111-chr1:225627420..225635153,13	K562	blood:
3	chr1:225609559..225620018-chr1:225630046..225635440,23	K562	blood:
4	chr1:225611259..225613937-chr1:225629471..225632737,4	K562	blood:
5	chr1:225629716..225632443-chr1:225636032..225637800,2	MCF-7	breast:
6	chr1:225620797..225622369-chr1:225629538..225632219,2	K562	blood:
7	chr1:225629715..225632156-chr1:225633081..225634899,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000143815	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10799310	0.84[ASN][1000 genomes]
rs10799312	1.00[CHB][hapmap];0.85[CHD][hapmap];0.80[ASN][1000 genomes]
rs10915831	0.97[ASN][1000 genomes]
rs10915836	0.84[ASN][1000 genomes]
rs11588279	0.92[CHB][hapmap];0.80[CHD][hapmap]
rs12032961	0.92[CHB][hapmap]
rs12034829	0.92[CHB][hapmap];0.89[CHD][hapmap];0.94[JPT][hapmap]
rs12742313	0.80[ASN][1000 genomes]
rs1340867	0.82[CHB][hapmap]
rs1891000	0.92[CHB][hapmap];0.89[CHD][hapmap];0.94[JPT][hapmap]
rs2039620	0.81[ASN][1000 genomes]
rs2066233	0.92[CHB][hapmap]
rs2185528	0.97[ASN][1000 genomes]
rs3766930	1.00[CHB][hapmap]
rs3893032	0.92[CHB][hapmap]
rs4233220	0.93[ASN][1000 genomes]
rs4554690	0.87[ASN][1000 genomes]
rs4653638	0.93[JPT][hapmap]
rs4653640	0.81[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs499782	1.00[CHB][hapmap];0.89[CHD][hapmap];0.88[JPT][hapmap]
rs6426075	1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];0.97[LWK][hapmap];0.83[MKK][hapmap];0.96[YRI][hapmap];0.86[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs6692054	0.93[ASN][1000 genomes]
rs6696038	0.91[CHB][hapmap]
rs6702641	0.84[ASN][1000 genomes]
rs7522622	0.82[ASN][1000 genomes]
rs7527014	0.82[ASN][1000 genomes]
rs7536925	0.80[ASN][1000 genomes]
rs7548473	0.80[ASN][1000 genomes]
rs7550784	0.80[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832714	chr1:225592333-225805396	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv1004851	chr1:225614140-225684184	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
3	esv34905	chr1:225631404-225676582	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1340865	DUSP10	cis	parietal	SCAN

Chromatin state (count:72 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:225625400-225636000	Enhancers	Colon Smooth Muscle	Colon
2	chr1:225626000-225636200	Enhancers	Fetal Intestine Large	intestine
3	chr1:225627600-225632400	Enhancers	Rectal Mucosa Donor 31	rectum
4	chr1:225627800-225631800	Enhancers	Stomach Mucosa	stomach
5	chr1:225627800-225632400	Enhancers	Stomach Smooth Muscle	stomach
6	chr1:225628000-225632400	Enhancers	Fetal Thymus	thymus
7	chr1:225628800-225632400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
8	chr1:225628800-225632400	Enhancers	K562	blood
9	chr1:225628800-225633000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
10	chr1:225629000-225632000	Enhancers	Primary hematopoietic stem cells short term culture	blood
11	chr1:225629000-225632200	Enhancers	Monocytes-CD14+_RO01746	blood
12	chr1:225629000-225632400	Enhancers	Primary B cells from cord blood	blood
13	chr1:225629000-225632400	Enhancers	Primary T cells fromperipheralblood	blood
14	chr1:225629000-225632400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
15	chr1:225629200-225632400	Enhancers	Primary T regulatory cells fromperipheralblood	blood
16	chr1:225629200-225632600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr1:225629200-225633000	Enhancers	Primary T killer memory cells from peripheral blood	blood
18	chr1:225629200-225636400	Enhancers	Primary monocytes fromperipheralblood	blood
19	chr1:225629400-225632400	Enhancers	Primary B cells from peripheral blood	blood
20	chr1:225629400-225635600	Enhancers	Primary hematopoietic stem cells	blood
21	chr1:225629400-225635600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
22	chr1:225629600-225634000	Enhancers	Sigmoid Colon	Sigmoid Colon
23	chr1:225629600-225634200	Enhancers	Spleen	Spleen
24	chr1:225629800-225631600	Enhancers	Primary neutrophils fromperipheralblood	blood
25	chr1:225629800-225632200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
26	chr1:225629800-225632400	Enhancers	Adipose Nuclei	Adipose
27	chr1:225629800-225634800	Enhancers	HUVEC	blood vessel
28	chr1:225630000-225632200	Enhancers	Left Ventricle	heart
29	chr1:225630000-225632400	Enhancers	Primary T cells from cord blood	blood
30	chr1:225630000-225632400	Enhancers	Duodenum Smooth Muscle	Duodenum
31	chr1:225630000-225632400	Enhancers	Thymus	Thymus
32	chr1:225630000-225632600	Enhancers	Primary T helper cells PMA-I stimulated	--
33	chr1:225630200-225632200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
34	chr1:225630200-225632400	Enhancers	Primary T helper naive cells from peripheral blood	blood
35	chr1:225630200-225632400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
36	chr1:225630200-225632400	Enhancers	Duodenum Mucosa	Duodenum
37	chr1:225630200-225632400	Enhancers	Rectal Mucosa Donor 29	rectum
38	chr1:225630200-225632400	Enhancers	GM12878-XiMat	blood
39	chr1:225630200-225633200	Weak transcription	Skeletal Muscle Female	skeletal muscle
40	chr1:225630200-225633400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
41	chr1:225630200-225634600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
42	chr1:225630200-225635200	Enhancers	Liver	Liver
43	chr1:225630200-225636400	Enhancers	Fetal Intestine Small	intestine
44	chr1:225630400-225632000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
45	chr1:225630400-225632400	Enhancers	Primary T helper cells fromperipheralblood	blood
46	chr1:225630600-225631600	Enhancers	Right Ventricle	heart
47	chr1:225630600-225632400	Enhancers	Hela-S3	cervix
48	chr1:225630800-225631800	Enhancers	Rectal Smooth Muscle	rectum
49	chr1:225630800-225633800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
50	chr1:225630800-225636600	Enhancers	Fetal Muscle Leg	muscle

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