Variant report

Variant	rs71536625
Chromosome Location	chr7:39124946-39124947
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	REST	chr7:39124858-39125903	H1-neurons	neurons:	n/a	n/a

Variant related genes	Relation type
POU6F2	TF binding region

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

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

rs_ID	r²[population]
rs10081387	0.86[EUR][1000 genomes]
rs10254198	0.88[EUR][1000 genomes]
rs13224070	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs13242821	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17431633	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34126088	1.00[AFR][1000 genomes]
rs34244073	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs34661097	1.00[AFR][1000 genomes]
rs35304721	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs71536628	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs71536629	1.00[AFR][1000 genomes];0.89[AMR][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	nsv1024142	chr7:38978728-39300444	Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv887968	chr7:39123165-39198960	Flanking Active TSS Enhancers Weak transcription Bivalent/Poised TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:39115600-39125200	Weak transcription	H1 Cell Line	embryonic stem cell
2	chr7:39122600-39125000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr7:39122800-39125000	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr7:39123200-39125000	Enhancers	Fetal Brain Male	brain
5	chr7:39123600-39125000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr7:39123800-39126600	Active TSS	Pancreatic Islets	Pancreatic Islet
7	chr7:39124000-39125000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr7:39124200-39125000	Enhancers	HUES48 Cell Line	embryonic stem cell
9	chr7:39124400-39125000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr7:39124400-39125200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr7:39124400-39125200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
12	chr7:39124400-39125800	Active TSS	Brain Cingulate Gyrus	brain
13	chr7:39124600-39125000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
14	chr7:39124600-39125200	Flanking Active TSS	Fetal Brain Female	brain
15	chr7:39124600-39125400	Bivalent/Poised TSS	Brain Inferior Temporal Lobe	brain
16	chr7:39124600-39125400	Enhancers	Fetal Heart	heart
17	chr7:39124600-39126000	Active TSS	iPS-15b Cell Line	embryonic stem cell
18	chr7:39124800-39125000	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
19	chr7:39124800-39125000	Enhancers	Primary hematopoietic stem cells	blood
20	chr7:39124800-39125000	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
21	chr7:39124800-39125000	Active TSS	Brain Angular Gyrus	brain
22	chr7:39124800-39125000	Enhancers	Brain Germinal Matrix	brain
23	chr7:39124800-39125200	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
24	chr7:39124800-39125200	Active TSS	Brain Anterior Caudate	brain
25	chr7:39124800-39125200	Active TSS	Psoas Muscle	Psoas
26	chr7:39124800-39125400	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
27	chr7:39124800-39125600	Flanking Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
28	chr7:39124800-39125600	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
29	chr7:39124800-39126000	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
30	chr7:39124800-39126400	Active TSS	Right Atrium	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links