Variant report

Variant	rs880434
Chromosome Location	chr1:225624635-225624636
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs12083979	1.00[JPT][hapmap]
rs12085130	1.00[JPT][hapmap]
rs12087159	1.00[JPT][hapmap]
rs12089582	1.00[JPT][hapmap]
rs1340868	1.00[CHD][hapmap]
rs1537877	1.00[JPT][hapmap]
rs16844841	1.00[JPT][hapmap]
rs16844846	1.00[JPT][hapmap]
rs16845078	1.00[CHD][hapmap]
rs17500814	1.00[CHD][hapmap]
rs17501138	1.00[CHD][hapmap]
rs17501956	1.00[CHD][hapmap]
rs17502068	1.00[CHD][hapmap]
rs17558869	1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs17559587	1.00[CHD][hapmap]
rs1876086	1.00[CHD][hapmap]
rs6679318	1.00[JPT][hapmap]
rs6679804	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7544179	0.95[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	nsv832714	chr1:225592333-225805396	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv1004851	chr1:225614140-225684184	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs880434	FAM177B	cis	cerebellum	SCAN

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:225617400-225626600	Weak transcription	Dnd41	blood
2	chr1:225619600-225629000	Weak transcription	Spleen	Spleen
3	chr1:225621200-225625000	Enhancers	Thymus	Thymus
4	chr1:225621200-225626000	Enhancers	Primary B cells from peripheral blood	blood
5	chr1:225622400-225626000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
6	chr1:225623000-225624800	Enhancers	K562	blood
7	chr1:225623000-225625400	Weak transcription	Primary hematopoietic stem cells	blood
8	chr1:225623800-225624800	Enhancers	Fetal Intestine Large	intestine
9	chr1:225623800-225625800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr1:225624200-225624800	Enhancers	HepG2	liver
11	chr1:225624200-225626200	Enhancers	Primary B cells from cord blood	blood
12	chr1:225624400-225628200	Weak transcription	Primary T helper cells fromperipheralblood	blood
13	chr1:225624400-225629000	Weak transcription	GM12878-XiMat	blood
14	chr1:225624600-225624800	Genic enhancers	Colon Smooth Muscle	Colon
15	chr1:225624600-225624800	Enhancers	Rectal Smooth Muscle	rectum
16	chr1:225624600-225625800	Weak transcription	Fetal Thymus	thymus
17	chr1:225624600-225627600	Weak transcription	Fetal Intestine Small	intestine

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

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