Variant report

Variant	rs11635562
Chromosome Location	chr15:60176781-60176782
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs11630216	1.00[ASN][1000 genomes]
rs11633106	1.00[ASN][1000 genomes]
rs11639458	1.00[ASN][1000 genomes]
rs12914150	1.00[ASN][1000 genomes]
rs17269733	1.00[CHD][hapmap]
rs17269838	1.00[ASN][1000 genomes]
rs2114133	1.00[ASN][1000 genomes]
rs4496069	1.00[ASN][1000 genomes]
rs4601985	1.00[ASN][1000 genomes]
rs56105620	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71407089	1.00[ASN][1000 genomes]
rs71480544	1.00[ASN][1000 genomes]
rs72737686	1.00[ASN][1000 genomes]
rs8035797	1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv904280	chr15:60042722-60524025	Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11635562	GCNT3	cis	parietal	SCAN

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:60171000-60178200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
2	chr15:60172000-60178000	Weak transcription	Thymus	Thymus
3	chr15:60172200-60177400	Weak transcription	NHEK	skin
4	chr15:60172800-60177400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr15:60172800-60177400	Weak transcription	HMEC	breast
6	chr15:60172800-60178200	Weak transcription	Fetal Brain Female	brain
7	chr15:60173000-60177400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr15:60175800-60178000	Weak transcription	H1 Cell Line	embryonic stem cell
9	chr15:60176000-60177800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
10	chr15:60176000-60178000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
11	chr15:60176000-60178200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr15:60176000-60178200	Weak transcription	HUES48 Cell Line	embryonic stem cell
13	chr15:60176000-60178800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr15:60176200-60178000	Weak transcription	HUES6 Cell Line	embryonic stem cell
15	chr15:60176200-60178000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

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Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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