Variant report

Variant	rs61642998
Chromosome Location	chr3:98246001-98246002
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Variant related genes	Relation type
GPR15	TF binding region
RPL38P4	TF binding region
CLDND1	TF binding region
ENSG00000080822	Chromatin interaction
ENSG00000248839	Chromatin interaction

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs1471299	1.00[EUR][1000 genomes]
rs1675530	1.00[AMR][1000 genomes]
rs16839839	1.00[EUR][1000 genomes]
rs16839882	1.00[EUR][1000 genomes]
rs16846235	1.00[EUR][1000 genomes]
rs1729991	1.00[AMR][1000 genomes]
rs1961152	1.00[EUR][1000 genomes]
rs56787128	1.00[EUR][1000 genomes]
rs57985907	1.00[EUR][1000 genomes]
rs58755405	1.00[EUR][1000 genomes]
rs58756404	1.00[EUR][1000 genomes]
rs59248577	1.00[EUR][1000 genomes]
rs60788607	1.00[EUR][1000 genomes]
rs72930963	1.00[AMR][1000 genomes]
rs7626745	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv528056	chr3:98101101-98317836	Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
2	nsv520503	chr3:98102801-98317836	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
3	nsv834774	chr3:98108423-98274064	Active TSS Weak transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
4	nsv834775	chr3:98170059-98367552	Enhancers Transcr. at gene 5' and 3' Weak transcription Strong transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
5	esv3390386	chr3:98174549-98579953	Genic enhancers Strong transcription Enhancers Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
6	nsv591065	chr3:98204198-98766326	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:98241800-98246800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr3:98242200-98246800	Weak transcription	Fetal Intestine Large	intestine
3	chr3:98242200-98247200	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr3:98242200-98250800	Weak transcription	Duodenum Mucosa	Duodenum
5	chr3:98242400-98247200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
6	chr3:98242800-98247400	Weak transcription	K562	blood
7	chr3:98243000-98247600	Transcr. at gene 5' and 3'	GM12878-XiMat	blood
8	chr3:98244600-98248800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
9	chr3:98244800-98247400	Weak transcription	Primary T cells fromperipheralblood	blood
10	chr3:98245400-98249800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood

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