Variant report

Variant	rs1604885
Chromosome Location	chr1:57690668-57690669
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs12071326	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12071373	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1504584	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1504587	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17115428	0.96[YRI][hapmap];1.00[AMR][1000 genomes]
rs17115441	0.80[ASW][hapmap]
rs197623	0.81[ASW][hapmap]

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	nsv461628	chr1:57463326-57816489	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv546305	chr1:57463326-57816489	Weak transcription Enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:57675600-57692600	Weak transcription	Fetal Intestine Large	intestine
2	chr1:57679200-57695000	Weak transcription	Fetal Brain Female	brain
3	chr1:57683600-57694800	Weak transcription	Liver	Liver
4	chr1:57684000-57695400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr1:57690000-57690800	Enhancers	H9 Cell Line	embryonic stem cell
6	chr1:57690000-57690800	Enhancers	HUES6 Cell Line	embryonic stem cell
7	chr1:57690000-57690800	Enhancers	iPS-15b Cell Line	embryonic stem cell
8	chr1:57690000-57690800	Enhancers	iPS-18 Cell Line	embryonic stem cell
9	chr1:57690000-57690800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
10	chr1:57690200-57690800	Enhancers	H1 Cell Line	embryonic stem cell
11	chr1:57690200-57690800	Enhancers	HUES48 Cell Line	embryonic stem cell
12	chr1:57690200-57691000	Enhancers	ES-I3 Cell Line	embryonic stem cell
13	chr1:57690200-57692600	Weak transcription	Fetal Intestine Small	intestine
14	chr1:57690400-57690800	Enhancers	Cortex derived primary cultured neurospheres	brain
15	chr1:57690600-57691000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
16	chr1:57690600-57695400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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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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