Variant report

Variant	rs9461541
Chromosome Location	chr6:29625195-29625196
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs17178518	0.86[ASN][1000 genomes]
rs17178532	0.86[ASN][1000 genomes]
rs29234	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs29235	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs29238	0.86[ASN][1000 genomes]
rs29240	0.86[ASN][1000 genomes]
rs29272	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3025623	0.86[ASN][1000 genomes]
rs3909134	0.86[ASN][1000 genomes]
rs73747624	0.86[ASN][1000 genomes]
rs9468571	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9468572	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9500947	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][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	esv2758039	chr6:29469101-29672665	Flanking Active TSS Active TSS Strong transcription Enhancers Weak transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
2	esv2759411	chr6:29469101-29672665	Active TSS Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:29618400-29629000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr6:29618400-29629600	Weak transcription	Right Ventricle	heart
3	chr6:29620000-29628800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
4	chr6:29620000-29631200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr6:29620600-29626600	Enhancers	Fetal Heart	heart
6	chr6:29623200-29625200	Enhancers	Breast Myoepithelial Primary Cells	Breast
7	chr6:29623400-29630600	Active TSS	Brain Anterior Caudate	brain
8	chr6:29623600-29627200	Active TSS	Brain Hippocampus Middle	brain
9	chr6:29624000-29628000	Active TSS	Brain Angular Gyrus	brain
10	chr6:29624200-29627800	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
11	chr6:29624200-29628000	Active TSS	Brain Cingulate Gyrus	brain
12	chr6:29624200-29628000	Active TSS	Brain Substantia Nigra	brain
13	chr6:29624400-29625200	Enhancers	GM12878-XiMat	blood
14	chr6:29624400-29629200	Active TSS	Brain Inferior Temporal Lobe	brain
15	chr6:29624400-29630400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
16	chr6:29624600-29625200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
17	chr6:29624600-29628600	Weak transcription	HUES64 Cell Line	embryonic stem cell
18	chr6:29624600-29628600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
19	chr6:29624800-29628600	Weak transcription	HUES48 Cell Line	embryonic stem cell
20	chr6:29624800-29628800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
21	chr6:29624800-29629000	Weak transcription	H9 Cell Line	embryonic stem cell
22	chr6:29624800-29631600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
23	chr6:29625000-29627200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
24	chr6:29625000-29628800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
25	chr6:29625000-29628800	Weak transcription	H1 Cell Line	embryonic stem cell
26	chr6:29625000-29628800	Weak transcription	HUES6 Cell Line	embryonic stem cell
27	chr6:29625000-29629000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr6:29625000-29629200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
29	chr6:29625000-29663600	Weak transcription	Right Atrium	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links