Variant report

Variant	rs72825704
Chromosome Location	chr2:99239164-99239165
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:99223676..99231123-chr2:99236273..99243561,12	MCF-7	breast:
2	chr2:99223477..99227103-chr2:99237470..99240691,6	MCF-7	breast:
3	chr2:99226628..99228917-chr2:99238059..99239915,2	K562	blood:
4	chr2:99232801..99235127-chr2:99235429..99239328,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000115446	Chromatin interaction
ENSG00000183513	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs11887056	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12618769	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12623494	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13416843	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17513621	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17513782	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3769693	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs3769694	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs3769695	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3769696	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3769697	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55934348	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6741558	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72825708	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs72825710	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72825711	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72825718	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72825719	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs72825720	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs72825725	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs72825727	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72825732	0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72825733	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7560357	0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1013941	chr2:99116255-99317933	Weak transcription Strong transcription Genic enhancers Active TSS Enhancers Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv535834	chr2:99116255-99317933	Weak transcription Enhancers ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:85 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:99227200-99257400	Strong transcription	Monocytes-CD14+_RO01746	blood
2	chr2:99227600-99243200	Strong transcription	Primary monocytes fromperipheralblood	blood
3	chr2:99227800-99239400	Strong transcription	HUVEC	blood vessel
4	chr2:99227800-99240200	Strong transcription	Fetal Thymus	thymus
5	chr2:99228000-99240000	Strong transcription	Dnd41	blood
6	chr2:99228000-99240400	Strong transcription	Duodenum Mucosa	Duodenum
7	chr2:99228000-99241200	Strong transcription	Rectal Mucosa Donor 29	rectum
8	chr2:99228200-99240400	Strong transcription	Fetal Intestine Large	intestine
9	chr2:99228200-99244600	Weak transcription	Pancreatic Islets	Pancreatic Islet
10	chr2:99229000-99240800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
11	chr2:99229400-99242400	Strong transcription	HepG2	liver
12	chr2:99230200-99250600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr2:99231200-99247600	Weak transcription	Brain Angular Gyrus	brain
14	chr2:99231200-99286200	Weak transcription	Stomach Mucosa	stomach
15	chr2:99232400-99239200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr2:99232400-99249000	Weak transcription	Psoas Muscle	Psoas
17	chr2:99232400-99250600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr2:99232600-99249400	Weak transcription	Aorta	Aorta
19	chr2:99232800-99250000	Strong transcription	Primary T helper cells fromperipheralblood	blood
20	chr2:99233400-99247200	Weak transcription	Brain Inferior Temporal Lobe	brain
21	chr2:99233800-99247600	Weak transcription	Spleen	Spleen
22	chr2:99234000-99239200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
23	chr2:99234000-99252800	Weak transcription	Brain Germinal Matrix	brain
24	chr2:99234200-99247600	Weak transcription	Fetal Stomach	stomach
25	chr2:99234400-99247400	Weak transcription	Right Ventricle	heart
26	chr2:99234400-99251000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
27	chr2:99234600-99310600	Weak transcription	Small Intestine	intestine
28	chr2:99234800-99240200	Weak transcription	GM12878-XiMat	blood
29	chr2:99234800-99242400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
30	chr2:99234800-99248400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
31	chr2:99234800-99250800	Weak transcription	Fetal Muscle Leg	muscle
32	chr2:99234800-99264600	Weak transcription	Ovary	ovary
33	chr2:99234800-99296400	Weak transcription	Esophagus	oesophagus
34	chr2:99235000-99240600	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
35	chr2:99235000-99247200	Weak transcription	Primary B cells from peripheral blood	blood
36	chr2:99235400-99244200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
37	chr2:99235400-99248800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
38	chr2:99235400-99273600	Weak transcription	Fetal Kidney	kidney
39	chr2:99235600-99246600	Weak transcription	Duodenum Smooth Muscle	Duodenum
40	chr2:99235800-99245200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
41	chr2:99236000-99239800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
42	chr2:99236000-99240600	Strong transcription	Rectal Mucosa Donor 31	rectum
43	chr2:99236000-99243800	Strong transcription	Primary T helper memory cells from peripheral blood 1	blood
44	chr2:99236000-99248800	Weak transcription	Liver	Liver
45	chr2:99236000-99251200	Weak transcription	Fetal Muscle Trunk	muscle
46	chr2:99236200-99240400	Strong transcription	Primary T cells from cord blood	blood
47	chr2:99237000-99240000	Weak transcription	Fetal Brain Female	brain
48	chr2:99237200-99239400	Strong transcription	Colon Smooth Muscle	Colon
49	chr2:99237200-99240200	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
50	chr2:99237400-99239200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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