Variant report

Variant	rs16971432
Chromosome Location	chr15:41321866-41321867
allele	A/G
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	POLR2A	chr15:41321815-41321894	GM12878	blood:	n/a	n/a
2	CTCF	chr15:41321720-41321870	GM12864	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:41315566..41320310-chr15:41320724..41323896,4	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-RHOV-1	chr15:41320640-41322414	ENSG00000251290

Variant related genes	Relation type
INO80	TF binding region
ENSG00000128908	Chromatin interaction
ENSG00000259521	Chromatin interaction

Extended variants
information (count: 21 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs11070309	1.00[EUR][1000 genomes]
rs16952284	1.00[EUR][1000 genomes]
rs16971262	1.00[EUR][1000 genomes]
rs16971415	1.00[EUR][1000 genomes]
rs34467689	1.00[EUR][1000 genomes]
rs34565230	1.00[EUR][1000 genomes]
rs3866933	1.00[EUR][1000 genomes]
rs558339	1.00[TSI][hapmap]
rs59140047	1.00[EUR][1000 genomes]
rs59835859	1.00[EUR][1000 genomes]
rs61073993	1.00[EUR][1000 genomes]
rs61633197	1.00[EUR][1000 genomes]
rs7169092	1.00[TSI][hapmap]
rs73396304	1.00[EUR][1000 genomes]
rs73396306	1.00[EUR][1000 genomes]
rs73396314	1.00[EUR][1000 genomes]
rs73396316	1.00[EUR][1000 genomes]
rs73401027	1.00[EUR][1000 genomes]
rs8032335	1.00[TSI][hapmap]
rs936220	1.00[TSI][hapmap];1.00[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	nsv1053462	chr15:41270067-41396094	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs16971432	FAM75D1	trans	lymphoblastoid	seeQTL

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:41258800-41348400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr15:41276600-41354600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr15:41280400-41339800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr15:41300200-41322400	Strong transcription	Primary T cells from cord blood	blood
5	chr15:41303400-41323400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
6	chr15:41304800-41322200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr15:41306000-41322200	Strong transcription	Fetal Thymus	thymus
8	chr15:41306800-41338800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
9	chr15:41307600-41335000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
10	chr15:41308800-41331200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
11	chr15:41308800-41337000	Weak transcription	Colonic Mucosa	Colon
12	chr15:41309000-41339200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
13	chr15:41309400-41332600	Weak transcription	Gastric	stomach
14	chr15:41310000-41333200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr15:41310000-41333400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
16	chr15:41310200-41322400	Strong transcription	Duodenum Mucosa	Duodenum
17	chr15:41311000-41322200	Strong transcription	Primary monocytes fromperipheralblood	blood
18	chr15:41311000-41328800	Strong transcription	Monocytes-CD14+_RO01746	blood
19	chr15:41311400-41335400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
20	chr15:41313400-41332800	Weak transcription	Brain Angular Gyrus	brain
21	chr15:41313400-41333200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
22	chr15:41313400-41336000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
23	chr15:41313400-41336200	Weak transcription	Brain Substantia Nigra	brain
24	chr15:41314000-41333000	Weak transcription	Placenta Amnion	Placenta Amnion
25	chr15:41314000-41335600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
26	chr15:41314600-41323800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
27	chr15:41314800-41331800	Weak transcription	Fetal Brain Male	brain
28	chr15:41315000-41322400	Strong transcription	Liver	Liver
29	chr15:41315000-41325200	Weak transcription	NHEK	skin
30	chr15:41316000-41323600	Strong transcription	Primary B cells from peripheral blood	blood
31	chr15:41316400-41322000	Strong transcription	HUES64 Cell Line	embryonic stem cell
32	chr15:41316400-41322200	Strong transcription	Rectal Mucosa Donor 31	rectum
33	chr15:41316400-41322400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
34	chr15:41316600-41322000	Strong transcription	Placenta	Placenta
35	chr15:41316600-41322200	Strong transcription	Primary hematopoietic stem cells	blood
36	chr15:41316600-41323000	Strong transcription	Fetal Intestine Large	intestine
37	chr15:41316800-41322800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
38	chr15:41316800-41323000	Strong transcription	Fetal Muscle Trunk	muscle
39	chr15:41317000-41322200	Strong transcription	NH-A	brain
40	chr15:41317000-41327400	Weak transcription	Aorta	Aorta
41	chr15:41317000-41331600	Weak transcription	Skeletal Muscle Male	skeletal muscle
42	chr15:41317000-41332200	Weak transcription	Right Ventricle	heart
43	chr15:41317200-41322400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
44	chr15:41317400-41331600	Weak transcription	Fetal Kidney	kidney
45	chr15:41317400-41331600	Weak transcription	Rectal Smooth Muscle	rectum
46	chr15:41317400-41332200	Weak transcription	Ovary	ovary
47	chr15:41317600-41332200	Weak transcription	HSMMtube	muscle
48	chr15:41317800-41322800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
49	chr15:41318000-41324200	Strong transcription	Fetal Intestine Small	intestine
50	chr15:41318000-41324400	Strong transcription	Fetal Stomach	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links