Variant report

Variant	rs7573763
Chromosome Location	chr2:178249808-178249809
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:178088428..178091246-chr2:178249667..178251290,2	K562	blood:
2	chr2:178248182..178250314-chr2:178256371..178259150,2	MCF-7	breast:
3	chr2:178244319..178246980-chr2:178248499..178250023,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TTC30B-3	chr2:178249715-178250131	NONHSAT075720

Variant related genes	Relation type
ENSG00000213963	Chromatin interaction
ENSG00000116044	Chromatin interaction
ENSG00000018510	Chromatin interaction

Extended variants
information (count: 103 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:103)

rs_ID	r²[population]
rs10165785	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10170546	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10170667	0.89[AFR][1000 genomes];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10176632	0.86[ASN][1000 genomes]
rs10194648	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10208150	0.87[ASN][1000 genomes]
rs10497502	0.81[ASN][1000 genomes]
rs10497503	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10497508	0.85[ASN][1000 genomes]
rs10803909	0.80[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10930792	0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11893448	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12104588	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12469386	0.86[ASN][1000 genomes]
rs12616443	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12618139	0.81[ASN][1000 genomes]
rs12620035	0.82[ASN][1000 genomes]
rs12693120	0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12990729	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12996447	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13000048	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13004955	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13027959	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1348848	0.87[AFR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1348849	0.87[AFR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1374437	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1453370	0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1453371	0.86[ASN][1000 genomes]
rs1453373	0.84[ASN][1000 genomes]
rs16865203	0.85[ASN][1000 genomes]
rs16865216	0.85[ASN][1000 genomes]
rs16865229	0.85[ASN][1000 genomes]
rs16865291	0.81[ASN][1000 genomes]
rs1901824	0.93[ASN][1000 genomes]
rs1901825	0.80[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs1901826	0.86[ASN][1000 genomes]
rs1901829	0.95[ASN][1000 genomes]
rs1979058	0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2060929	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2084233	0.88[AFR][1000 genomes];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2121430	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2166558	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2197611	0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2364845	0.80[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs2364854	0.86[ASN][1000 genomes]
rs3769995	0.81[ASN][1000 genomes]
rs3769996	0.81[ASN][1000 genomes]
rs3769997	0.81[ASN][1000 genomes]
rs3770002	0.83[ASN][1000 genomes]
rs3813259	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3902850	0.89[AFR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4243388	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4341974	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4893821	0.93[ASN][1000 genomes]
rs4893822	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4893823	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4893824	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4893825	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4893931	0.88[ASN][1000 genomes]
rs4893932	0.93[ASN][1000 genomes]
rs4893934	0.93[ASN][1000 genomes]
rs4893935	0.91[ASN][1000 genomes]
rs4893936	0.94[ASN][1000 genomes]
rs4893938	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4893941	0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4893944	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4893945	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4893946	0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4893950	0.89[AFR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4893951	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4893954	0.86[ASN][1000 genomes]
rs4893957	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4893959	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs56942680	0.89[ASN][1000 genomes]
rs57273542	0.84[ASN][1000 genomes]
rs57295810	0.81[ASN][1000 genomes]
rs57527255	0.83[ASN][1000 genomes]
rs57541536	0.83[ASN][1000 genomes]
rs57733896	0.81[ASN][1000 genomes]
rs57948641	0.83[ASN][1000 genomes]
rs58297927	0.83[ASN][1000 genomes]
rs58483300	0.89[ASN][1000 genomes]
rs59111239	0.85[ASN][1000 genomes]
rs59208652	0.83[ASN][1000 genomes]
rs59504156	0.82[ASN][1000 genomes]
rs59751564	0.82[ASN][1000 genomes]
rs60670838	0.84[ASN][1000 genomes]
rs60733259	0.89[ASN][1000 genomes]
rs6433670	0.84[AFR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6433673	0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6710575	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6742951	0.89[AFR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7565022	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7586051	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7587604	0.88[ASN][1000 genomes]
rs7591807	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7604673	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7606235	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7607450	0.86[AFR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs8941	0.86[EUR][1000 genomes]
rs952746	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9679607	0.89[AFR][1000 genomes];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9789582	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7573763	DKFZp451M2119	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:178218000-178256200	Weak transcription	HepG2	liver
2	chr2:178235400-178256600	Weak transcription	Primary T cells from cord blood	blood
3	chr2:178239600-178254800	Weak transcription	A549	lung
4	chr2:178243000-178250000	Weak transcription	Psoas Muscle	Psoas
5	chr2:178243000-178256200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr2:178243000-178256400	Weak transcription	Fetal Intestine Small	intestine
7	chr2:178243200-178256400	Weak transcription	Primary T cells fromperipheralblood	blood
8	chr2:178243200-178256600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr2:178243200-178256600	Weak transcription	NHEK	skin
10	chr2:178243200-178257000	Weak transcription	Fetal Thymus	thymus
11	chr2:178243400-178256400	Weak transcription	Duodenum Smooth Muscle	Duodenum
12	chr2:178243400-178256600	Weak transcription	Duodenum Mucosa	Duodenum
13	chr2:178243400-178256600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
14	chr2:178243600-178256600	Weak transcription	NHDF-Ad	bronchial
15	chr2:178243800-178256600	Weak transcription	Fetal Muscle Leg	muscle
16	chr2:178244800-178256400	Weak transcription	Stomach Smooth Muscle	stomach
17	chr2:178245200-178256400	Weak transcription	Adipose Nuclei	Adipose
18	chr2:178245200-178256400	Weak transcription	Brain Hippocampus Middle	brain
19	chr2:178245200-178256400	Weak transcription	Brain Inferior Temporal Lobe	brain
20	chr2:178245200-178256400	Weak transcription	Monocytes-CD14+_RO01746	blood
21	chr2:178245400-178255000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
22	chr2:178245600-178254800	Weak transcription	HSMM	muscle
23	chr2:178245600-178256600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
24	chr2:178245800-178252600	Weak transcription	Dnd41	blood
25	chr2:178245800-178254800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr2:178245800-178256600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
27	chr2:178245800-178257000	Weak transcription	Left Ventricle	heart
28	chr2:178246000-178250400	Enhancers	Primary neutrophils fromperipheralblood	blood
29	chr2:178246000-178254800	Weak transcription	K562	blood
30	chr2:178246200-178256400	Weak transcription	Primary T helper cells PMA-I stimulated	--
31	chr2:178248800-178250200	Enhancers	Liver	Liver
32	chr2:178249000-178256000	Weak transcription	GM12878-XiMat	blood
33	chr2:178249000-178256200	Weak transcription	Primary hematopoietic stem cells	blood
34	chr2:178249200-178254800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
35	chr2:178249200-178256600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
36	chr2:178249400-178254800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
37	chr2:178249400-178256400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
38	chr2:178249600-178256400	Weak transcription	HUES6 Cell Line	embryonic stem cell

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