Variant report

Variant	rs13142480
Chromosome Location	chr4:16003849-16003850
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:15964272..15965075-chr4:16003223..16004688,4	MCF-7	breast:
2	chr4:15964272..15965200-chr4:16003223..16004794,11	MCF-7	breast:
3	chr4:15959990..15961998-chr4:16003303..16004831,2	MCF-7	breast:
4	chr4:15964453..15965435-chr4:16002730..16004002,7	MCF-7	breast:
5	chr4:15884412..15887141-chr4:16001687..16004364,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000137441	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs12498478	0.81[EUR][1000 genomes]
rs12512355	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17477869	0.81[EUR][1000 genomes]
rs2240682	0.87[EUR][1000 genomes]
rs4466038	0.83[EUR][1000 genomes]
rs4632653	0.82[EUR][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	nsv1012988	chr4:15597510-16091527	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
2	nsv916742	chr4:15797994-16064232	Strong transcription Enhancers Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:49 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:15964600-16031000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr4:15969600-16011600	Weak transcription	Fetal Lung	lung
3	chr4:15971000-16008000	Weak transcription	Aorta	Aorta
4	chr4:15977000-16007400	Weak transcription	Gastric	stomach
5	chr4:15982200-16008200	Weak transcription	Brain Germinal Matrix	brain
6	chr4:15988400-16033800	Weak transcription	Pancreas	Pancrea
7	chr4:15989000-16008000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr4:15989000-16014400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr4:15989000-16024200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr4:15990000-16015200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr4:15991000-16029000	Weak transcription	Stomach Mucosa	stomach
12	chr4:15992800-16024800	Weak transcription	Fetal Intestine Small	intestine
13	chr4:15994800-16007200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr4:15995400-16007200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr4:15995400-16007800	Weak transcription	Sigmoid Colon	Sigmoid Colon
16	chr4:15996800-16007400	Weak transcription	Rectal Mucosa Donor 31	rectum
17	chr4:15996800-16008000	Weak transcription	Colonic Mucosa	Colon
18	chr4:15997000-16006800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
19	chr4:15999800-16004000	Weak transcription	Fetal Muscle Trunk	muscle
20	chr4:16000000-16007000	Weak transcription	HUES48 Cell Line	embryonic stem cell
21	chr4:16000200-16005400	Weak transcription	HUES64 Cell Line	embryonic stem cell
22	chr4:16001800-16007200	Weak transcription	H9 Cell Line	embryonic stem cell
23	chr4:16002000-16004000	Weak transcription	Rectal Mucosa Donor 29	rectum
24	chr4:16002000-16006400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
25	chr4:16002200-16004600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
26	chr4:16002600-16009400	Weak transcription	Fetal Brain Male	brain
27	chr4:16002800-16006000	Enhancers	Ovary	ovary
28	chr4:16003000-16005400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr4:16003000-16010000	Weak transcription	Rectal Smooth Muscle	rectum
30	chr4:16003200-16004000	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
31	chr4:16003200-16004200	Genic enhancers	Primary hematopoietic stem cells short term culture	blood
32	chr4:16003200-16004400	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
33	chr4:16003400-16004600	Strong transcription	Fetal Muscle Leg	muscle
34	chr4:16003400-16007200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
35	chr4:16003400-16007200	Weak transcription	HUES6 Cell Line	embryonic stem cell
36	chr4:16003400-16007200	Weak transcription	Fetal Thymus	thymus
37	chr4:16003400-16007400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
38	chr4:16003400-16009800	Weak transcription	Fetal Brain Female	brain
39	chr4:16003400-16019800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
40	chr4:16003400-16020200	Weak transcription	Left Ventricle	heart
41	chr4:16003400-16024600	Weak transcription	Duodenum Mucosa	Duodenum
42	chr4:16003400-16027000	Weak transcription	Right Ventricle	heart
43	chr4:16003600-16005000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
44	chr4:16003600-16006800	Weak transcription	H1 Cell Line	embryonic stem cell
45	chr4:16003600-16006800	Weak transcription	Fetal Stomach	stomach
46	chr4:16003600-16007400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
47	chr4:16003600-16007600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
48	chr4:16003800-16004000	Weak transcription	Primary hematopoietic stem cells	blood
49	chr4:16003800-16008800	Weak transcription	Cortex derived primary cultured neurospheres	brain

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