Variant report

Variant	rs28407789
Chromosome Location	chr16:73077559-73077560
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr16:72963587..72965845-chr16:73075815..73078142,3	MCF-7	breast:
2	chr16:73050031..73052152-chr16:73076520..73078945,2	MCF-7	breast:
3	chr16:73022944..73025430-chr16:73077446..73079033,2	MCF-7	breast:

Extended variants
information (count: 6 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs13330336	0.91[AFR][1000 genomes]
rs28594767	0.91[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv906898	chr16:73017684-73128146	Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	nsv827730	chr16:73066699-73115642	Active TSS Bivalent Enhancer Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
3	nsv827732	chr16:73069343-73116594	Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
4	nsv827733	chr16:73075114-73103721	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:88 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:73067000-73079200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr16:73067200-73078400	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr16:73067800-73081400	Weak transcription	Small Intestine	intestine
4	chr16:73068400-73078000	Weak transcription	Hela-S3	cervix
5	chr16:73070400-73080400	Weak transcription	Rectal Mucosa Donor 29	rectum
6	chr16:73071000-73079800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr16:73071200-73081200	Bivalent Enhancer	HUES64 Cell Line	embryonic stem cell
8	chr16:73071600-73081200	Weak transcription	Esophagus	oesophagus
9	chr16:73072000-73077800	Enhancers	Skeletal Muscle Female	skeletal muscle
10	chr16:73072200-73080000	Weak transcription	Stomach Mucosa	stomach
11	chr16:73072400-73078200	Weak transcription	Gastric	stomach
12	chr16:73072400-73080000	Weak transcription	Primary hematopoietic stem cells	blood
13	chr16:73072400-73080800	Weak transcription	Spleen	Spleen
14	chr16:73072600-73077600	Weak transcription	Liver	Liver
15	chr16:73072600-73077600	Weak transcription	Fetal Intestine Large	intestine
16	chr16:73072600-73080200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr16:73074200-73077600	Weak transcription	A549	lung
18	chr16:73074200-73079000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
19	chr16:73074400-73078000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr16:73074400-73079000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr16:73074600-73078600	Bivalent Enhancer	ES-I3 Cell Line	embryonic stem cell
22	chr16:73074800-73080600	Weak transcription	HMEC	breast
23	chr16:73075000-73079200	Bivalent Enhancer	iPS-15b Cell Line	embryonic stem cell
24	chr16:73075000-73079400	Enhancers	Fetal Lung	lung
25	chr16:73075000-73080800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr16:73075400-73077800	Enhancers	Colon Smooth Muscle	Colon
27	chr16:73075400-73080000	Enhancers	Skeletal Muscle Male	skeletal muscle
28	chr16:73075800-73078400	Enhancers	Aorta	Aorta
29	chr16:73075800-73079200	Bivalent Enhancer	HUES48 Cell Line	embryonic stem cell
30	chr16:73076000-73078400	Enhancers	Brain Anterior Caudate	brain
31	chr16:73076000-73080600	Enhancers	Psoas Muscle	Psoas
32	chr16:73076000-73081000	Enhancers	Placenta	Placenta
33	chr16:73076200-73078400	Enhancers	Duodenum Smooth Muscle	Duodenum
34	chr16:73076200-73078600	Bivalent Enhancer	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
35	chr16:73076200-73078600	Flanking Active TSS	GM12878-XiMat	blood
36	chr16:73076200-73081000	Enhancers	Fetal Muscle Leg	muscle
37	chr16:73076200-73081200	Enhancers	Placenta Amnion	Placenta Amnion
38	chr16:73076400-73077600	Enhancers	Lung	lung
39	chr16:73076400-73077800	Enhancers	Right Atrium	heart
40	chr16:73076400-73078200	Bivalent Enhancer	HUES6 Cell Line	embryonic stem cell
41	chr16:73076400-73078400	Bivalent Enhancer	ES-WA7 Cell Line	embryonic stem cell
42	chr16:73076400-73078400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
43	chr16:73076400-73078600	Enhancers	Brain Angular Gyrus	brain
44	chr16:73076400-73078600	Enhancers	Fetal Muscle Trunk	muscle
45	chr16:73076400-73078600	Enhancers	Left Ventricle	heart
46	chr16:73076400-73079400	Enhancers	Brain Substantia Nigra	brain
47	chr16:73076400-73080000	Enhancers	Brain Hippocampus Middle	brain
48	chr16:73076400-73080200	Enhancers	Adipose Nuclei	Adipose
49	chr16:73076600-73078800	Flanking Active TSS	Stomach Smooth Muscle	stomach
50	chr16:73076600-73079600	Enhancers	Rectal Smooth Muscle	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links