Variant report

Variant	rs17086397
Chromosome Location	chr4:57052644-57052645
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs11937296	1.00[AMR][1000 genomes]
rs17086415	0.81[AFR][1000 genomes]
rs17086420	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17086442	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17086445	1.00[AMR][1000 genomes]
rs17086455	1.00[AMR][1000 genomes]
rs35287003	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73158800	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2755990	chr4:56317136-57143037	Strong transcription Weak transcription Flanking Bivalent TSS/Enh Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases
2	nsv1007114	chr4:56942917-57055381	Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv999639	chr4:56942917-57401310	Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Strong transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
4	nsv1014045	chr4:56942917-57404511	Weak transcription Strong transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
5	nsv1012036	chr4:56963544-57106642	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:57016800-57054000	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr4:57023000-57076000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr4:57043600-57053600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr4:57045400-57053400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr4:57046600-57053400	Weak transcription	Fetal Intestine Large	intestine
6	chr4:57047600-57056600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr4:57047800-57053400	Weak transcription	Cortex derived primary cultured neurospheres	brain
8	chr4:57048000-57053000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr4:57048000-57053400	Weak transcription	Fetal Kidney	kidney
10	chr4:57048400-57053000	Weak transcription	Fetal Muscle Trunk	muscle
11	chr4:57048800-57054600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr4:57048800-57056800	Weak transcription	Fetal Stomach	stomach
13	chr4:57049800-57053200	Weak transcription	Fetal Lung	lung
14	chr4:57050000-57052800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr4:57050000-57056800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr4:57050000-57062200	Weak transcription	Rectal Mucosa Donor 31	rectum
17	chr4:57050000-57076000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
18	chr4:57050000-57084600	Weak transcription	Fetal Brain Male	brain
19	chr4:57050200-57053200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
20	chr4:57050200-57053200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
21	chr4:57050200-57063600	Weak transcription	HepG2	liver
22	chr4:57050600-57075800	Weak transcription	Ovary	ovary
23	chr4:57050800-57052800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
24	chr4:57050800-57053400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
25	chr4:57050800-57056800	Weak transcription	Fetal Intestine Small	intestine
26	chr4:57051000-57053400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr4:57051000-57056600	Weak transcription	Brain Germinal Matrix	brain
28	chr4:57051000-57056800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
29	chr4:57051000-57057400	Weak transcription	Fetal Brain Female	brain
30	chr4:57051800-57053200	Strong transcription	Primary hematopoietic stem cells	blood
31	chr4:57051800-57055400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
32	chr4:57052000-57053400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
33	chr4:57052000-57053600	Enhancers	Fetal Muscle Leg	muscle
34	chr4:57052200-57054200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
35	chr4:57052600-57052800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
36	chr4:57052600-57053800	Enhancers	HUES6 Cell Line	embryonic stem cell
37	chr4:57052600-57053800	Enhancers	Stomach Mucosa	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links