Variant report

Variant	rs6490433
Chromosome Location	chr13:30468502-30468503
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 8 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs2388238	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2388248	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs8000203	0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8000402	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9508585	0.97[ASN][1000 genomes]
rs998751	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[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	esv3520592	chr13:30243601-30648554	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	esv3520593	chr13:30243601-30648554	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6490433	SLC7A1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:30452600-30472200	Weak transcription	Ovary	ovary
2	chr13:30463000-30476400	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr13:30467600-30468600	Enhancers	NHDF-Ad	bronchial
4	chr13:30467800-30468600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr13:30468000-30468600	Enhancers	H1 Cell Line	embryonic stem cell
6	chr13:30468000-30468600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr13:30468000-30468600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr13:30468000-30468600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr13:30468000-30468600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr13:30468000-30468600	Enhancers	Esophagus	oesophagus
11	chr13:30468000-30468600	Enhancers	Gastric	stomach
12	chr13:30468000-30468600	Enhancers	Pancreas	Pancrea
13	chr13:30468000-30468600	Enhancers	Sigmoid Colon	Sigmoid Colon
14	chr13:30468000-30468600	Enhancers	Stomach Mucosa	stomach
15	chr13:30468000-30468800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr13:30468000-30473800	Weak transcription	Pancreatic Islets	Pancreatic Islet
17	chr13:30468200-30468600	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr13:30468200-30468600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
19	chr13:30468200-30468600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
20	chr13:30468400-30468600	Active TSS	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr13:30468400-30468600	Enhancers	HUES6 Cell Line	embryonic stem cell

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