Variant report

Variant	rs2556565
Chromosome Location	chr15:44844262-44844263
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:44829011..44830774-chr15:44841931..44844429,2	MCF-7	breast:
2	chr15:44843060..44845487-chr15:44846368..44848756,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000104131	Chromatin interaction
ENSG00000179523	Chromatin interaction

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

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

rs_ID	r²[population]
rs16964013	0.89[CEU][hapmap];1.00[YRI][hapmap]
rs2556563	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2556568	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs4099	0.80[CEU][hapmap]
rs4611428	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs9944172	0.80[AMR][1000 genomes];0.94[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	nsv431387	chr15:43929378-44862930	Weak transcription Strong transcription Active TSS ZNF genes & repeats Enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	158 gene(s)	inside rSNPs	diseases
2	esv3386433	chr15:44654644-45037538	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	135 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:44830400-44844400	Weak transcription	Spleen	Spleen
2	chr15:44830400-44848600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr15:44830400-44850200	Weak transcription	Aorta	Aorta
4	chr15:44830400-44855200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr15:44830400-44855200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr15:44830800-44844400	Weak transcription	Colonic Mucosa	Colon
7	chr15:44831000-44844400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
8	chr15:44831000-44844800	Weak transcription	Right Ventricle	heart
9	chr15:44831000-44856800	Weak transcription	Fetal Brain Male	brain
10	chr15:44833000-44844400	Weak transcription	H9 Cell Line	embryonic stem cell
11	chr15:44833600-44844800	Weak transcription	Fetal Lung	lung
12	chr15:44833800-44844600	Weak transcription	Rectal Mucosa Donor 31	rectum
13	chr15:44833800-44857200	Weak transcription	Small Intestine	intestine
14	chr15:44834000-44844400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
15	chr15:44834200-44844600	Weak transcription	Brain Substantia Nigra	brain
16	chr15:44834200-44844800	Weak transcription	Fetal Kidney	kidney
17	chr15:44834600-44844400	Weak transcription	Fetal Brain Female	brain
18	chr15:44834600-44846200	Weak transcription	Brain Germinal Matrix	brain
19	chr15:44835000-44844800	Weak transcription	Brain Inferior Temporal Lobe	brain
20	chr15:44835000-44847200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
21	chr15:44835200-44844800	Weak transcription	HepG2	liver
22	chr15:44835600-44844600	Weak transcription	Stomach Smooth Muscle	stomach
23	chr15:44836000-44844800	Weak transcription	Ovary	ovary
24	chr15:44838400-44847200	Weak transcription	Brain Cingulate Gyrus	brain
25	chr15:44838400-44857200	Weak transcription	Stomach Mucosa	stomach
26	chr15:44838800-44844400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
27	chr15:44838800-44844400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr15:44838800-44844800	Weak transcription	Colon Smooth Muscle	Colon
29	chr15:44838800-44847200	Weak transcription	Pancreatic Islets	Pancreatic Islet
30	chr15:44838800-44849400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
31	chr15:44839000-44844400	Weak transcription	Rectal Smooth Muscle	rectum
32	chr15:44839000-44844800	Weak transcription	Brain Anterior Caudate	brain
33	chr15:44839000-44845000	Weak transcription	Duodenum Smooth Muscle	Duodenum
34	chr15:44839000-44846800	Weak transcription	Fetal Heart	heart
35	chr15:44839000-44846800	Weak transcription	HSMMtube	muscle
36	chr15:44839000-44847000	Weak transcription	Brain Angular Gyrus	brain
37	chr15:44839200-44845000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
38	chr15:44839600-44847200	Weak transcription	Psoas Muscle	Psoas
39	chr15:44840000-44856000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
40	chr15:44840200-44858000	Strong transcription	Primary monocytes fromperipheralblood	blood
41	chr15:44840600-44855600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr15:44840600-44857000	Strong transcription	Hela-S3	cervix
43	chr15:44841000-44844400	Weak transcription	HSMM	muscle
44	chr15:44842000-44845200	Strong transcription	K562	blood
45	chr15:44842000-44951600	Strong transcription	Monocytes-CD14+_RO01746	blood
46	chr15:44842200-44847200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
47	chr15:44842400-44856600	Strong transcription	HUES6 Cell Line	embryonic stem cell
48	chr15:44842400-44857400	Weak transcription	Right Atrium	heart
49	chr15:44842600-44846000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
50	chr15:44842600-44846800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links