Variant report

Variant	rs2074477
Chromosome Location	chr6:30132035-30132036
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	ZEB1	chr6:30130574-30132078	HepG2	liver:	n/a	n/a
2	MYBL2	chr6:30131840-30132705	HepG2	liver:	n/a	n/a

Variant related genes	Relation type
TRIM10	TF binding region
TRIM15	TF binding region

Extended variants
information (count: 27 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs12175655	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12660499	0.83[EUR][1000 genomes]
rs17188015	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17188113	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17194460	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2239531	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2284167	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2284171	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs28730510	0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3734837	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3815081	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs41272587	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41272591	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4282437	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56307380	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62390201	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs62390202	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9348838	0.82[EUR][1000 genomes]
rs9366753	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9366754	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9368622	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9368624	0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9378189	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9378221	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9380156	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9391677	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9391802	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs2074477	HLA-L	cis	lymphoblastoid	seeQTL
rs2074477	TRIM26	Cis_1M	lymphoblastoid	RTeQTL
rs2074477	HCG18	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:30124800-30132600	Weak transcription	Right Atrium	heart
2	chr6:30130200-30133000	Active TSS	Colonic Mucosa	Colon
3	chr6:30130400-30132800	Active TSS	Rectal Mucosa Donor 29	rectum
4	chr6:30130800-30132400	Active TSS	Duodenum Mucosa	Duodenum
5	chr6:30130800-30132600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
6	chr6:30130800-30132600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr6:30131000-30132800	Active TSS	Rectal Smooth Muscle	rectum
8	chr6:30131200-30132400	Bivalent/Poised TSS	HepG2	liver
9	chr6:30131200-30134200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
10	chr6:30131400-30132800	Active TSS	Duodenum Smooth Muscle	Duodenum
11	chr6:30131400-30132800	Active TSS	Sigmoid Colon	Sigmoid Colon
12	chr6:30131400-30132800	Enhancers	K562	blood
13	chr6:30131400-30134800	Weak transcription	Primary hematopoietic stem cells	blood
14	chr6:30131400-30134800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
15	chr6:30131400-30134800	Weak transcription	Primary T helper cells PMA-I stimulated	--
16	chr6:30131600-30132200	Flanking Active TSS	Stomach Mucosa	stomach
17	chr6:30131600-30132800	Enhancers	Primary hematopoietic stem cells short term culture	blood
18	chr6:30131800-30132400	Flanking Active TSS	Liver	Liver
19	chr6:30131800-30132800	Transcr. at gene 5' and 3'	Fetal Intestine Small	intestine
20	chr6:30132000-30132800	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
21	chr6:30132000-30133000	Active TSS	Fetal Intestine Large	intestine
22	chr6:30132000-30133800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links