Variant report

Variant	rs892787
Chromosome Location	chr15:79199298-79199299
allele	C/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:11)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

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

No.	Distal block	Cell Line	Cell type
1	chr15:79192574..79195927-chr15:79196065..79200236,5	K562	blood:
2	chr15:79187118..79189482-chr15:79197270..79200003,2	K562	blood:
3	chr15:79164137..79170280-chr15:79189650..79200289,14	K562	blood:
4	chr15:79164436..79167557-chr15:79196961..79200289,3	K562	blood:
5	chr15:79164370..79166501-chr15:79197613..79199615,2	MCF-7	breast:
6	chr15:79165877..79167855-chr15:79198881..79201176,2	MCF-7	breast:
7	chr15:79198644..79201340-chr15:79270795..79273687,2	K562	blood:
8	chr15:79198300..79200794-chr15:79228097..79230964,2	K562	blood:
9	chr15:79197450..79200031-chr15:79207203..79209165,2	MCF-7	breast:
10	chr15:79198022..79200286-chr15:79243264..79245188,2	K562	blood:
11	chr15:79173489..79175037-chr15:79197852..79199934,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000177699	Chromatin interaction
ENSG00000185787	Chromatin interaction
ENSG00000103811	Chromatin interaction
ENSG00000058335	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs10851913	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10851914	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12592340	0.93[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12595538	0.90[JPT][hapmap];0.81[ASN][1000 genomes]
rs12898532	0.94[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12899800	0.91[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs12911969	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.93[YRI][hapmap];0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs59772922	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6495346	0.81[ASN][1000 genomes]
rs7171258	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7180375	0.84[ASN][1000 genomes]
rs7181033	0.81[ASN][1000 genomes]
rs734287	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7402286	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.85[YRI][hapmap];0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7497610	0.80[CHB][hapmap]
rs8042186	0.95[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs8042638	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9806693	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[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	nsv917303	chr15:78491050-79205255	Enhancers Genic enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	122 gene(s)	inside rSNPs	diseases
2	esv33573	chr15:79053484-79293881	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	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
rs892787	CTSH	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:79171200-79199600	Strong transcription	iPS-18 Cell Line	embryonic stem cell
2	chr15:79171200-79199800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
3	chr15:79171200-79215600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr15:79171600-79199600	Strong transcription	H1 Cell Line	embryonic stem cell
5	chr15:79171600-79200400	Strong transcription	Monocytes-CD14+_RO01746	blood
6	chr15:79171800-79207800	Strong transcription	Fetal Thymus	thymus
7	chr15:79172000-79200200	Strong transcription	HUVEC	blood vessel
8	chr15:79172000-79202800	Strong transcription	Primary neutrophils fromperipheralblood	blood
9	chr15:79172200-79199600	Strong transcription	HUES48 Cell Line	embryonic stem cell
10	chr15:79172200-79200200	Strong transcription	Primary monocytes fromperipheralblood	blood
11	chr15:79172200-79207000	Strong transcription	Primary B cells from peripheral blood	blood
12	chr15:79172400-79200000	Strong transcription	Fetal Intestine Large	intestine
13	chr15:79172400-79216200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr15:79172600-79201800	Strong transcription	Duodenum Mucosa	Duodenum
15	chr15:79172600-79207400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
16	chr15:79172800-79199800	Strong transcription	HUES6 Cell Line	embryonic stem cell
17	chr15:79172800-79199800	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
18	chr15:79172800-79202600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
19	chr15:79172800-79205400	Strong transcription	Fetal Lung	lung
20	chr15:79172800-79206800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr15:79173200-79199600	Strong transcription	HUES64 Cell Line	embryonic stem cell
22	chr15:79173400-79203000	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
23	chr15:79173600-79206200	Strong transcription	Fetal Muscle Leg	muscle
24	chr15:79173600-79206400	Strong transcription	Rectal Mucosa Donor 31	rectum
25	chr15:79173800-79206400	Strong transcription	Fetal Muscle Trunk	muscle
26	chr15:79176400-79199800	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
27	chr15:79176600-79202400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
28	chr15:79176800-79215200	Strong transcription	Dnd41	blood
29	chr15:79177000-79202200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
30	chr15:79177000-79207800	Strong transcription	Primary T cells fromperipheralblood	blood
31	chr15:79177200-79206800	Strong transcription	Rectal Mucosa Donor 29	rectum
32	chr15:79178000-79200000	Strong transcription	Primary T helper cells PMA-I stimulated	--
33	chr15:79178000-79200400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
34	chr15:79178200-79219400	Strong transcription	Primary T helper cells fromperipheralblood	blood
35	chr15:79178600-79200000	Strong transcription	Sigmoid Colon	Sigmoid Colon
36	chr15:79182200-79199400	Strong transcription	H9 Cell Line	embryonic stem cell
37	chr15:79184000-79204600	Weak transcription	Pancreatic Islets	Pancreatic Islet
38	chr15:79184800-79200400	Strong transcription	Primary hematopoietic stem cells	blood
39	chr15:79185600-79208600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
40	chr15:79187200-79200800	Strong transcription	GM12878-XiMat	blood
41	chr15:79187400-79213600	Weak transcription	Small Intestine	intestine
42	chr15:79188000-79209400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
43	chr15:79189800-79199400	Strong transcription	Fetal Brain Female	brain
44	chr15:79190000-79200000	Strong transcription	Lung	lung
45	chr15:79190000-79208200	Strong transcription	Primary T cells from cord blood	blood
46	chr15:79190000-79222200	Strong transcription	Thymus	Thymus
47	chr15:79190200-79200400	Strong transcription	Primary B cells from cord blood	blood
48	chr15:79190400-79204200	Strong transcription	Fetal Stomach	stomach
49	chr15:79190400-79207000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
50	chr15:79190400-79208200	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links