Variant report

Variant	rs10849105
Chromosome Location	chr12:4719675-4719676
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr12:4712752..4714423-chr12:4719213..4721715,2	K562	blood:
2	chr12:4712076..4715630-chr12:4717272..4720188,3	K562	blood:
3	chr12:4715702..4719110-chr12:4719525..4722538,3	K562	blood:

Variant related genes	Relation type
ENSG00000256748	Chromatin interaction
ENSG00000010219	Chromatin interaction
ENSG00000272921	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10444479	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10444480	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10774246	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10774248	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10774249	0.85[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.84[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs10849101	0.92[CEU][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10849106	1.00[CEU][hapmap];1.00[CHB][hapmap];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10849107	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10849113	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11063251	0.92[CEU][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11063257	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11063259	0.92[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11063261	1.00[CHB][hapmap];0.81[CHD][hapmap];0.92[GIH][hapmap];0.90[JPT][hapmap];0.92[MEX][hapmap];0.95[TSI][hapmap];0.97[ASN][1000 genomes]
rs11063268	0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs11063271	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11063277	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12184474	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12184480	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12366671	1.00[CHB][hapmap];0.81[CHD][hapmap];0.92[GIH][hapmap];0.90[JPT][hapmap];0.91[MEX][hapmap];0.95[TSI][hapmap];0.97[ASN][1000 genomes]
rs1990316	1.00[CEU][hapmap];1.00[CHB][hapmap];0.81[CHD][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];0.84[MEX][hapmap];1.00[TSI][hapmap];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1990317	1.00[CHB][hapmap];0.88[JPT][hapmap];0.97[ASN][1000 genomes]
rs2072355	0.82[TSI][hapmap]
rs2072356	0.82[TSI][hapmap]
rs6416316	0.82[MEX][hapmap];0.90[TSI][hapmap]
rs7312062	0.82[TSI][hapmap]
rs997373	0.85[CEU][hapmap];0.86[TSI][hapmap]

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	nsv557123	chr12:4436632-4736569	Transcr. at gene 5' and 3' Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
2	nsv832318	chr12:4655799-4875837	Enhancers Strong transcription Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
3	nsv898617	chr12:4715082-4768619	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10849105	TULP3	cis	parietal	SCAN

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:4714400-4722800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr12:4714400-4724800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr12:4714400-4726400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr12:4714600-4719800	Weak transcription	Psoas Muscle	Psoas
5	chr12:4714600-4721600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr12:4714600-4721800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr12:4714600-4721800	Weak transcription	Brain Germinal Matrix	brain
8	chr12:4714600-4721800	Weak transcription	Fetal Muscle Trunk	muscle
9	chr12:4714600-4722200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr12:4714600-4725400	Weak transcription	Fetal Muscle Leg	muscle
11	chr12:4714600-4726200	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr12:4714600-4726800	Weak transcription	Right Ventricle	heart
13	chr12:4714800-4720000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr12:4714800-4721600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr12:4714800-4721600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
16	chr12:4714800-4721800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
17	chr12:4714800-4722200	Weak transcription	HUES6 Cell Line	embryonic stem cell
18	chr12:4714800-4722400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr12:4714800-4724400	Weak transcription	H1 Cell Line	embryonic stem cell
20	chr12:4714800-4725800	Weak transcription	Fetal Brain Male	brain
21	chr12:4714800-4726600	Weak transcription	Placenta Amnion	Placenta Amnion
22	chr12:4715000-4720400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
23	chr12:4715000-4722200	Weak transcription	A549	lung
24	chr12:4715000-4722400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
25	chr12:4715200-4722000	Weak transcription	HUES48 Cell Line	embryonic stem cell
26	chr12:4715200-4722000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr12:4715200-4722200	Weak transcription	Fetal Kidney	kidney
28	chr12:4715200-4722400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
29	chr12:4715200-4722600	Weak transcription	Muscle Satellite Cultured Cells	--
30	chr12:4715200-4722600	Weak transcription	Esophagus	oesophagus
31	chr12:4715200-4724200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
32	chr12:4715200-4725000	Weak transcription	Pancreatic Islets	Pancreatic Islet
33	chr12:4715200-4725400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
34	chr12:4715200-4726400	Weak transcription	Fetal Heart	heart
35	chr12:4715800-4722400	Weak transcription	Fetal Brain Female	brain
36	chr12:4715800-4722600	Weak transcription	Small Intestine	intestine
37	chr12:4716000-4721600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
38	chr12:4716000-4722200	Weak transcription	Colon Smooth Muscle	Colon
39	chr12:4716000-4722400	Weak transcription	NHLF	lung
40	chr12:4716000-4725000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
41	chr12:4716000-4726400	Weak transcription	HUVEC	blood vessel
42	chr12:4716000-4726400	Weak transcription	NHDF-Ad	bronchial
43	chr12:4716200-4720000	Strong transcription	Fetal Stomach	stomach
44	chr12:4716200-4720200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
45	chr12:4716200-4721800	Weak transcription	Skeletal Muscle Male	skeletal muscle
46	chr12:4716200-4722200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
47	chr12:4716200-4722800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
48	chr12:4716200-4725400	Strong transcription	Primary neutrophils fromperipheralblood	blood
49	chr12:4716400-4720200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
50	chr12:4716400-4724400	Weak transcription	Stomach Mucosa	stomach

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