Variant report

Variant	rs9368632
Chromosome Location	chr6:30255505-30255506
allele	A/G
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:7)
LncRNA
region (count:3)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:7 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:30237407..30239197-chr6:30252856..30255574,2	K562	blood:
2	chr6:30247937..30250793-chr6:30252677..30256148,3	MCF-7	breast:
3	chr6:30254447..30256446-chr6:30257313..30259885,2	K562	blood:
4	chr6:30233530..30235918-chr6:30253137..30255680,2	K562	blood:
5	chr6:30253777..30255721-chr6:30311555..30314145,2	K562	blood:
6	chr6:30239562..30242228-chr6:30254581..30256565,2	K562	blood:
7	chr6:30253881..30256754-chr6:30260097..30262848,2	K562	blood:

(count:3 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TRIM26-2	chr6:30255174-30257149	ENSG00000231074.4
2	lnc-TRIM26-2	chr6:30255174-30257271	NONHSAT108617
3	lnc-TRIM26-2	chr6:30255386-30257271	NONHSAT108618

No data

Variant related genes	Relation type
ENSG00000241370	Chromatin interaction

Extended variants
information (count: 67 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:66)

rs_ID	r²[population]
rs1045251	0.83[ASN][1000 genomes]
rs12174823	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1264616	0.83[ASN][1000 genomes]
rs1473102	0.83[ASN][1000 genomes]
rs1579218	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1579219	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2023476	0.80[ASN][1000 genomes]
rs2023477	0.93[ASN][1000 genomes]
rs2023478	0.80[ASN][1000 genomes]
rs2057727	0.83[ASN][1000 genomes]
rs2097773	0.81[ASN][1000 genomes]
rs2240058	0.91[EUR][1000 genomes]
rs2285798	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2394779	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2394780	0.81[ASN][1000 genomes]
rs2516699	0.80[ASN][1000 genomes]
rs2516700	0.80[ASN][1000 genomes]
rs2516702	0.80[ASN][1000 genomes]
rs2516704	0.80[ASN][1000 genomes]
rs2516705	0.80[ASN][1000 genomes]
rs2516706	0.81[ASN][1000 genomes]
rs2516707	0.80[ASN][1000 genomes]
rs2516710	0.80[ASN][1000 genomes]
rs2516713	0.80[ASN][1000 genomes]
rs2523737	0.83[ASN][1000 genomes]
rs2523744	0.80[ASN][1000 genomes]
rs2523745	0.80[ASN][1000 genomes]
rs2523746	0.80[ASN][1000 genomes]
rs2523747	0.80[ASN][1000 genomes]
rs2523750	0.80[ASN][1000 genomes]
rs261943	0.83[ASN][1000 genomes]
rs261948	0.83[ASN][1000 genomes]
rs261949	0.80[ASN][1000 genomes]
rs28360021	0.83[ASN][1000 genomes]
rs28360023	0.83[ASN][1000 genomes]
rs2844752	0.83[ASN][1000 genomes]
rs2844761	0.83[ASN][1000 genomes]
rs2844763	0.82[ASN][1000 genomes]
rs2844765	0.83[ASN][1000 genomes]
rs2894145	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3778624	0.81[ASN][1000 genomes]
rs3778626	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs5030611	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs56183729	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6912239	0.83[ASN][1000 genomes]
rs6912495	0.83[ASN][1000 genomes]
rs7452694	0.81[ASN][1000 genomes]
rs9295843	0.83[ASN][1000 genomes]
rs9295844	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9357095	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9366755	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9368628	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9368633	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9380173	0.91[EUR][1000 genomes]
rs9380174	0.80[ASN][1000 genomes]
rs9391679	0.82[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9391762	0.89[EUR][1000 genomes]
rs9391806	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9391807	0.82[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9393999	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9394000	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9394001	0.83[ASN][1000 genomes]
rs9394002	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9394003	0.80[ASN][1000 genomes]
rs962899	0.80[ASN][1000 genomes]
rs974962	0.91[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	nsv884062	chr6:30237454-30256838	ZNF genes & repeats Weak transcription Enhancers Strong transcription Bivalent Enhancer	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9368632	TRIM26	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:30247600-30262400	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr6:30248400-30255600	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr6:30252200-30262600	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
4	chr6:30252800-30256600	Weak transcription	A549	lung
5	chr6:30253000-30256400	Weak transcription	Brain Hippocampus Middle	brain
6	chr6:30253000-30256600	Weak transcription	Brain Angular Gyrus	brain
7	chr6:30253000-30259400	Weak transcription	Psoas Muscle	Psoas
8	chr6:30253200-30256000	Weak transcription	HSMMtube	muscle
9	chr6:30253200-30256200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr6:30253200-30256400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr6:30253200-30256400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr6:30253200-30256600	Weak transcription	Right Ventricle	heart
13	chr6:30253400-30256600	Weak transcription	NHDF-Ad	bronchial
14	chr6:30253600-30256600	Weak transcription	Skeletal Muscle Male	skeletal muscle
15	chr6:30253600-30259000	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
16	chr6:30254200-30256400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr6:30254200-30256400	Weak transcription	Brain Inferior Temporal Lobe	brain
18	chr6:30254200-30256400	Weak transcription	Brain Substantia Nigra	brain
19	chr6:30254400-30256600	Weak transcription	Rectal Mucosa Donor 31	rectum
20	chr6:30255000-30256400	Weak transcription	Skeletal Muscle Female	skeletal muscle
21	chr6:30255000-30257000	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr6:30255200-30256000	Weak transcription	Placenta Amnion	Placenta Amnion
23	chr6:30255200-30256200	Weak transcription	Brain Anterior Caudate	brain
24	chr6:30255200-30259800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
25	chr6:30255200-30261000	Weak transcription	Fetal Brain Male	brain
26	chr6:30255400-30255600	Weak transcription	Duodenum Smooth Muscle	Duodenum
27	chr6:30255400-30255800	ZNF genes & repeats	Primary T helper cells fromperipheralblood	blood
28	chr6:30255400-30256200	Weak transcription	Primary B cells from peripheral blood	blood
29	chr6:30255400-30256400	Weak transcription	Thymus	Thymus
30	chr6:30255400-30256800	Weak transcription	Colon Smooth Muscle	Colon
31	chr6:30255400-30259200	Weak transcription	HUVEC	blood vessel

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links