Variant report

Variant	rs1432830
Chromosome Location	chr5:147078815-147078816
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10074880	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10463280	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1432827	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1432828	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1432829	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1594659	0.83[EUR][1000 genomes]
rs17107216	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1835943	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35604260	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4476710	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs55843547	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs56920672	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs58854348	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6580496	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6580497	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs67302609	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6869450	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6878916	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6895574	0.88[ASN][1000 genomes]
rs7713466	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7720860	0.85[EUR][1000 genomes]
rs7727216	0.80[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7731462	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs1432830	TNIP1	cis	parietal	SCAN
rs1432830	SCGB3A2	cis	parietal	SCAN
rs1432830	JAKMIP2	cis	parietal	SCAN

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:147074600-147081000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
2	chr5:147076600-147079000	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr5:147076600-147079600	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain
4	chr5:147076800-147079000	ZNF genes & repeats	Primary hematopoietic stem cells	blood
5	chr5:147077800-147079000	Weak transcription	Brain Hippocampus Middle	brain
6	chr5:147077800-147079400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr5:147077800-147080400	Weak transcription	Fetal Brain Female	brain
8	chr5:147078000-147079200	Weak transcription	Brain Substantia Nigra	brain
9	chr5:147078000-147082400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr5:147078200-147084400	Weak transcription	H9 Cell Line	embryonic stem cell
11	chr5:147078400-147079200	Weak transcription	Brain Anterior Caudate	brain
12	chr5:147078600-147079600	Enhancers	Brain Cingulate Gyrus	brain
13	chr5:147078600-147146000	Weak transcription	Primary T cells from cord blood	blood
14	chr5:147078800-147079600	Enhancers	Brain Angular Gyrus	brain
15	chr5:147078800-147079600	Enhancers	Brain Inferior Temporal Lobe	brain

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