Variant report

Variant	rs907388
Chromosome Location	chr15:77828668-77828669
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	chr15:77800050..77802176-chr15:77827673..77829514,2	MCF-7	breast:
2	chr15:77827126..77831240-chr15:77834209..77836612,4	K562	blood:

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs1005752	1.00[CEU][hapmap];0.86[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1022172	0.86[EUR][1000 genomes]
rs11072653	0.82[CHB][hapmap];0.86[JPT][hapmap]
rs11633054	0.91[CEU][hapmap];0.81[CHB][hapmap];0.95[JPT][hapmap];0.85[EUR][1000 genomes]
rs11854328	0.81[CHB][hapmap];0.90[JPT][hapmap];0.86[ASN][1000 genomes]
rs11857450	1.00[CEU][hapmap];0.81[CHB][hapmap];0.95[JPT][hapmap];0.92[EUR][1000 genomes]
rs11857860	0.81[CHB][hapmap];0.95[JPT][hapmap];0.86[ASN][1000 genomes]
rs1191196	0.81[CHB][hapmap];0.86[JPT][hapmap]
rs12324627	0.84[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes]
rs12900004	0.81[CHB][hapmap];0.91[JPT][hapmap];0.82[ASN][1000 genomes]
rs12901130	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs12901503	1.00[CEU][hapmap];0.85[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12907746	0.91[JPT][hapmap];0.82[ASN][1000 genomes]
rs12910361	0.85[EUR][1000 genomes]
rs1473922	0.86[CHB][hapmap];0.86[JPT][hapmap]
rs1565756	0.91[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap];0.84[EUR][1000 genomes]
rs2055901	0.91[CEU][hapmap];0.81[CHB][hapmap];0.95[JPT][hapmap];0.85[EUR][1000 genomes]
rs34591043	0.91[CEU][hapmap];0.81[CHB][hapmap];0.86[JPT][hapmap];0.81[EUR][1000 genomes]
rs4886866	0.82[CHB][hapmap];0.86[JPT][hapmap]
rs4886869	0.81[CHB][hapmap];0.95[JPT][hapmap]
rs4886875	0.81[CHB][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs4886876	0.82[CHB][hapmap];0.95[JPT][hapmap];0.86[ASN][1000 genomes]
rs4886877	0.86[CHB][hapmap];0.95[JPT][hapmap];0.86[ASN][1000 genomes]
rs59153558	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs62009090	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6495240	0.83[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes]
rs7162637	0.83[JPT][hapmap]
rs7170877	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7171448	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7172144	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7177055	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7178572	0.91[CEU][hapmap];0.81[CHB][hapmap];0.95[JPT][hapmap];0.83[EUR][1000 genomes]
rs8024485	0.91[CEU][hapmap];0.81[CHB][hapmap];0.86[JPT][hapmap];0.81[EUR][1000 genomes]
rs8034133	0.91[CEU][hapmap];0.82[CHB][hapmap];0.95[JPT][hapmap];0.85[EUR][1000 genomes]
rs869301	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs907369	0.82[ASN][1000 genomes]
rs907372	0.81[JPT][hapmap]
rs952471	0.83[EUR][1000 genomes]
rs952472	0.84[EUR][1000 genomes]
rs965480	0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1040852	chr15:77160237-78137541	Enhancers Flanking Active TSS Active TSS Strong transcription Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv916323	chr15:77485765-78121259	Enhancers Strong transcription Weak transcription Genic enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv1043284	chr15:77740632-77884026	Weak transcription Strong transcription Genic enhancers Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
4	nsv570139	chr15:77762493-77865459	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
5	nsv570140	chr15:77787469-77851535	Flanking Active TSS Weak transcription Active TSS Enhancers Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv833060	chr15:77816654-78035204	Weak transcription Bivalent Enhancer Enhancers Genic enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
7	esv1806097	chr15:77817889-78301377	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:56 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:77819800-77831000	Weak transcription	Gastric	stomach
2	chr15:77821000-77831200	Weak transcription	Esophagus	oesophagus
3	chr15:77821600-77830200	Weak transcription	Left Ventricle	heart
4	chr15:77822000-77833600	Weak transcription	Right Atrium	heart
5	chr15:77824800-77829400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr15:77825800-77830200	Weak transcription	Right Ventricle	heart
7	chr15:77825800-77831000	Weak transcription	Stomach Mucosa	stomach
8	chr15:77826400-77829800	Weak transcription	Fetal Brain Male	brain
9	chr15:77826600-77829200	Weak transcription	Fetal Brain Female	brain
10	chr15:77827000-77828800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
11	chr15:77827000-77829000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr15:77827000-77829600	Weak transcription	HUES48 Cell Line	embryonic stem cell
13	chr15:77827000-77829800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr15:77827000-77833200	Weak transcription	HSMMtube	muscle
15	chr15:77827000-77835400	Weak transcription	Psoas Muscle	Psoas
16	chr15:77827000-77845400	Weak transcription	Fetal Kidney	kidney
17	chr15:77827200-77830200	Weak transcription	Skeletal Muscle Male	skeletal muscle
18	chr15:77827400-77829400	Weak transcription	Fetal Muscle Trunk	muscle
19	chr15:77827600-77832400	Enhancers	Pancreas	Pancrea
20	chr15:77827600-77834000	Enhancers	Primary B cells from peripheral blood	blood
21	chr15:77827800-77830000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
22	chr15:77827800-77831200	Weak transcription	Skeletal Muscle Female	skeletal muscle
23	chr15:77828200-77829800	Enhancers	Fetal Intestine Small	intestine
24	chr15:77828400-77828800	Enhancers	iPS-18 Cell Line	embryonic stem cell
25	chr15:77828400-77828800	Enhancers	Placenta	Placenta
26	chr15:77828400-77828800	Enhancers	Spleen	Spleen
27	chr15:77828400-77828800	Enhancers	K562	blood
28	chr15:77828400-77829000	Enhancers	Fetal Intestine Large	intestine
29	chr15:77828400-77829000	Enhancers	Fetal Lung	lung
30	chr15:77828400-77829800	Enhancers	GM12878-XiMat	blood
31	chr15:77828400-77831400	Enhancers	ES-I3 Cell Line	embryonic stem cell
32	chr15:77828400-77831800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
33	chr15:77828400-77831800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
34	chr15:77828400-77832000	Enhancers	Brain Hippocampus Middle	brain
35	chr15:77828400-77832400	Enhancers	HUES6 Cell Line	embryonic stem cell
36	chr15:77828400-77833400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
37	chr15:77828400-77835400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr15:77828400-77835400	Enhancers	Cortex derived primary cultured neurospheres	brain
39	chr15:77828400-77835400	Enhancers	Brain Anterior Caudate	brain
40	chr15:77828600-77829000	Enhancers	Fetal Heart	heart
41	chr15:77828600-77829000	Weak transcription	Fetal Muscle Leg	muscle
42	chr15:77828600-77829000	Enhancers	HepG2	liver
43	chr15:77828600-77829200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
44	chr15:77828600-77829200	Enhancers	Fetal Stomach	stomach
45	chr15:77828600-77829400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
46	chr15:77828600-77830200	Enhancers	Brain Inferior Temporal Lobe	brain
47	chr15:77828600-77831200	Enhancers	HUES64 Cell Line	embryonic stem cell
48	chr15:77828600-77831400	Enhancers	iPS-20b Cell Line	embryonic stem cell
49	chr15:77828600-77831600	Enhancers	H9 Cell Line	embryonic stem cell
50	chr15:77828600-77831600	Enhancers	Brain Germinal Matrix	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links