Variant report

Variant	rs1409205
Chromosome Location	chr10:18764075-18764076
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 10 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs10828779	0.82[JPT][hapmap]
rs12257502	1.00[CEU][hapmap]
rs1570937	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs16917369	1.00[CEU][hapmap]
rs16917375	1.00[CEU][hapmap];0.82[CHB][hapmap]
rs4748472	0.82[JPT][hapmap]
rs7090112	0.86[AMR][1000 genomes]
rs7098844	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9943388	0.86[CHB][hapmap];1.00[AFR][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	nsv550042	chr10:18683267-18994583	ZNF genes & repeats Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1409205	SLC39A12	cis	lymphoblastoid	seeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:18732400-18801600	Weak transcription	Pancreas	Pancrea
2	chr10:18753000-18775600	Weak transcription	Right Atrium	heart
3	chr10:18760000-18765000	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr10:18761600-18764800	Weak transcription	Dnd41	blood
5	chr10:18761800-18766800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
6	chr10:18762200-18769600	Enhancers	Fetal Heart	heart
7	chr10:18763200-18764400	Enhancers	Right Ventricle	heart
8	chr10:18763200-18765800	Enhancers	Left Ventricle	heart
9	chr10:18763400-18764600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr10:18763400-18764800	Weak transcription	Cortex derived primary cultured neurospheres	brain
11	chr10:18763400-18766600	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr10:18763600-18767400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr10:18763600-18778400	Weak transcription	Stomach Smooth Muscle	stomach
14	chr10:18764000-18764200	Enhancers	HUES48 Cell Line	embryonic stem cell
15	chr10:18764000-18766400	Weak transcription	iPS-20b Cell Line	embryonic stem cell

Quick Search:

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

what's new

Quick links