Variant report

Variant	rs2138351
Chromosome Location	chr1:165561970-165561971
allele	G/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:11)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

No data

(count:11 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:165226625..165228087-chr1:165561750..165562805,5	K562	blood:
2	chr1:165372874..165373802-chr1:165561869..165562669,5	MCF-7	breast:
3	chr1:165361774..165362688-chr1:165561662..165562980,6	MCF-7	breast:
4	chr1:165377432..165378424-chr1:165561887..165562474,3	K562	blood:
5	chr1:165377455..165378027-chr1:165561880..165562910,7	MCF-7	breast:
6	chr1:165083624..165084216-chr1:165561962..165562804,2	K562	blood:
7	chr1:165377580..165378293-chr1:165561493..165562676,4	MCF-7	breast:
8	chr1:165372897..165374942-chr1:165561137..165563189,2	MCF-7	breast:
9	chr1:165361798..165362919-chr1:165561812..165563315,19	K562	blood:
10	chr1:165361816..165362809-chr1:165561790..165562363,2	MCF-7	breast:
11	chr1:165372861..165373913-chr1:165561845..165562894,14	MCF-7	breast:

No data

No data

No data

Extended variants
information (count: 19 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10753684	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10800113	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10800114	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10800115	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10918219	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10918221	0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1337441	0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1337444	0.89[EUR][1000 genomes]
rs1337448	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1538116	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3930290	0.90[EUR][1000 genomes]
rs4656450	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4657454	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4657455	0.88[EUR][1000 genomes]
rs6679871	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6692834	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7537189	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7543817	0.90[EUR][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	nsv429902	chr1:165531342-165574342	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs2138351	MGST3	cis	multi-tissue	Pritchard
rs2138351	MGST3	cis	Esophagus Mucosa	GTEx
rs2138351	MGST3	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:165547400-165566800	Weak transcription	Psoas Muscle	Psoas
2	chr1:165561200-165562000	Bivalent Enhancer	Primary T helper 17 cells PMA-I stimulated	--
3	chr1:165561400-165562600	Bivalent Enhancer	Primary T helper memory cells from peripheral blood 1	blood
4	chr1:165561800-165562000	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr1:165561800-165562200	Bivalent Enhancer	Primary T helper naive cells from peripheral blood	blood
6	chr1:165561800-165562400	Bivalent Enhancer	Primary T regulatory cells fromperipheralblood	blood
7	chr1:165561800-165562400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr1:165561800-165562600	Bivalent Enhancer	Primary T helper cells PMA-I stimulated	--

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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

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