Variant report

Variant	rs7669540
Chromosome Location	chr4:78003646-78003647
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:77994285..77999121-chr4:78003590..78007383,5	K562	blood:
2	chr4:77995405..77999334-chr4:78000731..78006327,9	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-CCNI-2	chr4:78003556-78004279	NONHSAT097042

Variant related genes	Relation type
ENSG00000118816	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs11737413	0.84[ASN][1000 genomes]
rs57011953	1.00[ASN][1000 genomes]
rs57498549	0.88[ASN][1000 genomes]
rs60645850	1.00[ASN][1000 genomes]
rs72860237	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs72860254	1.00[ASN][1000 genomes]
rs72860266	1.00[ASN][1000 genomes]
rs72860268	1.00[ASN][1000 genomes]
rs72860270	1.00[ASN][1000 genomes]
rs7669246	1.00[ASN][1000 genomes]
rs7699175	1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv980220	chr4:78002601-78004358	Weak transcription Enhancers Strong transcription Active TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:77998200-78004200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
2	chr4:77998400-78004200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr4:77998400-78004400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr4:77998400-78013800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr4:77998400-78016800	Weak transcription	Aorta	Aorta
6	chr4:77998600-78004400	Weak transcription	Placenta	Placenta
7	chr4:77998600-78004600	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr4:77998800-78004600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr4:77998800-78005000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr4:77998800-78020600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
11	chr4:77999200-78003800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr4:77999400-78004400	Weak transcription	Fetal Lung	lung
13	chr4:77999400-78005000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr4:77999400-78006600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
15	chr4:77999400-78012200	Weak transcription	HMEC	breast
16	chr4:77999600-78005000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr4:77999800-78004800	Weak transcription	NHEK	skin
18	chr4:77999800-78010600	Weak transcription	Fetal Muscle Trunk	muscle
19	chr4:77999800-78013400	Weak transcription	Thymus	Thymus
20	chr4:78000000-78012200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr4:78001000-78014800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
22	chr4:78001400-78014400	Weak transcription	Fetal Intestine Small	intestine
23	chr4:78001600-78016400	Weak transcription	Fetal Stomach	stomach
24	chr4:78002400-78004000	Weak transcription	Primary neutrophils fromperipheralblood	blood
25	chr4:78002600-78005000	Weak transcription	Primary hematopoietic stem cells	blood
26	chr4:78002600-78013800	Weak transcription	Primary B cells from cord blood	blood
27	chr4:78002800-78004200	Weak transcription	Primary T cells from cord blood	blood
28	chr4:78003400-78004200	Enhancers	Psoas Muscle	Psoas
29	chr4:78003400-78004400	Enhancers	Skeletal Muscle Female	skeletal muscle
30	chr4:78003400-78004600	Enhancers	Skeletal Muscle Male	skeletal muscle
31	chr4:78003600-78003800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
32	chr4:78003600-78004600	Enhancers	Fetal Muscle Leg	muscle
33	chr4:78003600-78004800	Enhancers	Breast Myoepithelial Primary Cells	Breast
34	chr4:78003600-78005400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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