Variant report

Variant	rs1795869
Chromosome Location	chr12:104941497-104941498
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 5 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs1631306	0.80[AMR][1000 genomes]
rs1704913	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs17811302	1.00[CHB][hapmap]
rs1795860	1.00[ASN][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	nsv832504	chr12:104853331-105028245	Flanking Active TSS Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs1795869	HOXA10	trans	lymphoblastoid	seeQTL
rs1795869	HOXA9	trans	lymphoblastoid	seeQTL

Chromatin state (count:58 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:104927200-104943000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
2	chr12:104929200-104942800	Weak transcription	Pancreas	Pancrea
3	chr12:104930200-104957600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
4	chr12:104930800-104943800	Weak transcription	Small Intestine	intestine
5	chr12:104933600-104941600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
6	chr12:104935200-104947400	Weak transcription	Aorta	Aorta
7	chr12:104935400-104943000	Weak transcription	A549	lung
8	chr12:104935400-104946400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr12:104935400-104947000	Weak transcription	Primary T cells from cord blood	blood
10	chr12:104935800-104943800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr12:104938400-104943200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
12	chr12:104938600-104941600	Enhancers	Primary hematopoietic stem cells	blood
13	chr12:104938600-104944000	Genic enhancers	Primary hematopoietic stem cells short term culture	blood
14	chr12:104939000-104941800	Enhancers	Primary monocytes fromperipheralblood	blood
15	chr12:104939000-104942000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
16	chr12:104939000-104946600	Enhancers	Primary B cells from peripheral blood	blood
17	chr12:104939200-104943800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
18	chr12:104939200-104943800	Weak transcription	HUES6 Cell Line	embryonic stem cell
19	chr12:104939200-104944800	Weak transcription	Brain Germinal Matrix	brain
20	chr12:104939200-104945400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
21	chr12:104939200-104951200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr12:104939400-104945000	Weak transcription	HSMMtube	muscle
23	chr12:104939600-104941600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr12:104939800-104943600	Weak transcription	Cortex derived primary cultured neurospheres	brain
25	chr12:104939800-104945200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
26	chr12:104939800-104946600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
27	chr12:104939800-104947400	Weak transcription	Spleen	Spleen
28	chr12:104939800-104948000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
29	chr12:104939800-104948000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
30	chr12:104940400-104945600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
31	chr12:104940600-104941600	Enhancers	Brain Substantia Nigra	brain
32	chr12:104940600-104958000	Weak transcription	K562	blood
33	chr12:104940800-104942000	Enhancers	Breast Myoepithelial Primary Cells	Breast
34	chr12:104940800-104943200	Strong transcription	Dnd41	blood
35	chr12:104940800-104943800	Weak transcription	HUVEC	blood vessel
36	chr12:104940800-104944000	Weak transcription	Primary T helper cells PMA-I stimulated	--
37	chr12:104941000-104941600	Enhancers	Primary neutrophils fromperipheralblood	blood
38	chr12:104941000-104942000	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr12:104941000-104943000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
40	chr12:104941000-104944000	Weak transcription	Primary B cells from cord blood	blood
41	chr12:104941000-104946400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
42	chr12:104941200-104941600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
43	chr12:104941200-104942600	Weak transcription	Primary T helper cells fromperipheralblood	blood
44	chr12:104941200-104943400	Weak transcription	Primary T cells fromperipheralblood	blood
45	chr12:104941200-104943400	Weak transcription	Placenta	Placenta
46	chr12:104941200-104943800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
47	chr12:104941200-104944800	Weak transcription	GM12878-XiMat	blood
48	chr12:104941200-104949200	Weak transcription	Fetal Brain Female	brain
49	chr12:104941200-104951400	Weak transcription	Thymus	Thymus
50	chr12:104941400-104942200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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