Variant report

Variant	rs1342929
Chromosome Location	chr1:151449138-151449139
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:12)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

No data

(count:12 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:151427933..151434225-chr1:151443087..151450932,17	K562	blood:
2	chr1:151447709..151453027-chr1:151481416..151487088,8	MCF-7	breast:
3	chr1:151448265..151450989-chr1:151452272..151453798,2	MCF-7	breast:
4	chr1:151429107..151437905-chr1:151438450..151450094,72	MCF-7	breast:
5	1:151447169-151452341..1:151618750-151636526	Hela-S3	cervix:
6	chr1:151426245..151428286-chr1:151447114..151449435,2	MCF-7	breast:
7	chr1:151446557..151449406-chr1:151463511..151465918,2	MCF-7	breast:
8	1:151411623-151426875..1:151447169-151452341	GM12878	blood:
9	1:151368336-151375897..1:151447169-151452341	GM12878	blood:
10	1:151447169-151452341..1:151496437-151509688	K562	blood:
11	1:151447169-151452341..1:151516085-151535167	GM12878	blood:
12	chr1:151428774..151440655-chr1:151441400..151449246,52	MCF-7	breast:

No data

No data

No data

Variant related genes	Relation type
ENSG00000207606	Chromatin interaction
ENSG00000159377	Chromatin interaction
ENSG00000143376	Chromatin interaction
ENSG00000143367	Chromatin interaction
ENSG00000143442	Chromatin interaction
ENSG00000223861	Chromatin interaction
ENSG00000252840	Chromatin interaction
ENSG00000143375	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs11204807	0.91[CHB][hapmap];0.91[JPT][hapmap]
rs11204811	0.90[CHB][hapmap];0.90[JPT][hapmap]
rs11204815	0.88[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs11578888	0.90[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes]
rs11584694	0.80[AMR][1000 genomes]
rs11801791	0.90[JPT][hapmap]
rs12120726	0.91[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes]
rs2274533	0.90[CHB][hapmap];0.90[JPT][hapmap]
rs2274534	0.90[CHB][hapmap];0.90[JPT][hapmap]
rs2274535	1.00[CHB][hapmap];0.91[JPT][hapmap]
rs3976737	0.90[CHB][hapmap];0.91[JPT][hapmap]
rs4246526	0.91[CHB][hapmap];0.91[JPT][hapmap];0.80[AMR][1000 genomes]
rs4528122	0.90[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes]
rs4971042	0.90[CHB][hapmap];1.00[JPT][hapmap]
rs4971049	0.91[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7172	0.90[CHB][hapmap];0.90[JPT][hapmap]
rs7542776	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][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	nsv916272	chr1:150961809-151557253	Weak transcription Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Active TSS Genic enhancers Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	219 gene(s)	inside rSNPs	diseases
2	nsv831581	chr1:151289151-151478605	Active TSS Weak transcription Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1342929	SELENBP1	cis	Thyroid	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:151446200-151449800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr1:151446200-151450600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr1:151446400-151451000	Weak transcription	Muscle Satellite Cultured Cells	--
4	chr1:151446600-151449200	Weak transcription	Right Atrium	heart
5	chr1:151446600-151450600	Weak transcription	Fetal Intestine Large	intestine
6	chr1:151446600-151450800	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr1:151446600-151452200	Weak transcription	A549	lung
8	chr1:151447400-151451400	Weak transcription	Fetal Heart	heart
9	chr1:151448400-151450800	Enhancers	GM12878-XiMat	blood
10	chr1:151449000-151449400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin

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