Variant report

Variant	rs1010777
Chromosome Location	chr9:100767860-100767861
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:100767752..100769741-chr9:100788658..100791290,2	K562	blood:
2	chr9:100749544..100751362-chr9:100767596..100769424,2	MCF-7	breast:
3	chr9:100765048..100766771-chr9:100766811..100769374,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000236896	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10116946	0.91[AFR][1000 genomes];0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10125654	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10984606	0.89[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1131641	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1572025	0.81[GIH][hapmap]
rs3739672	0.81[GIH][hapmap]
rs4742710	1.00[CEU][hapmap];0.89[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4743152	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs56145417	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7035650	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];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7044744	0.89[GIH][hapmap];1.00[MEX][hapmap];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7855088	0.81[GIH][hapmap]
rs7870926	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.84[LWK][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];0.98[TSI][hapmap];0.96[YRI][hapmap];0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7874518	0.95[EUR][1000 genomes]
rs987142	1.00[CEU][hapmap];0.89[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1010777	C9orf102	cis	parietal	SCAN

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:100752000-100784000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr9:100753000-100768400	Weak transcription	Fetal Heart	heart
3	chr9:100753000-100769000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr9:100754600-100784200	Strong transcription	Dnd41	blood
5	chr9:100754600-100784400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr9:100755200-100782200	Strong transcription	HepG2	liver
7	chr9:100755200-100783800	Strong transcription	NHEK	skin
8	chr9:100755400-100783000	Weak transcription	Stomach Mucosa	stomach
9	chr9:100755600-100769200	Weak transcription	Pancreatic Islets	Pancreatic Islet
10	chr9:100755600-100784400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr9:100755800-100782200	Strong transcription	K562	blood
12	chr9:100756000-100777800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr9:100756400-100772600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
14	chr9:100756400-100783600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr9:100756400-100783800	Strong transcription	Fetal Muscle Trunk	muscle
16	chr9:100756400-100784400	Strong transcription	Fetal Thymus	thymus
17	chr9:100756600-100785600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
18	chr9:100756800-100771600	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr9:100756800-100771800	Strong transcription	Monocytes-CD14+_RO01746	blood
20	chr9:100756800-100781200	Strong transcription	HUES64 Cell Line	embryonic stem cell
21	chr9:100756800-100783000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr9:100756800-100783400	Strong transcription	HMEC	breast
23	chr9:100757000-100768000	Strong transcription	Left Ventricle	heart
24	chr9:100757000-100769400	Strong transcription	HUVEC	blood vessel
25	chr9:100757000-100771000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
26	chr9:100757000-100771600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
27	chr9:100757000-100771600	Strong transcription	HSMM	muscle
28	chr9:100757000-100771800	Strong transcription	Primary monocytes fromperipheralblood	blood
29	chr9:100757000-100772200	Strong transcription	Primary B cells from peripheral blood	blood
30	chr9:100757000-100772600	Strong transcription	Primary T cells fromperipheralblood	blood
31	chr9:100757000-100781000	Strong transcription	Rectal Mucosa Donor 29	rectum
32	chr9:100757000-100785200	Strong transcription	Placenta	Placenta
33	chr9:100757200-100783600	Strong transcription	Liver	Liver
34	chr9:100757400-100770800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
35	chr9:100757400-100784000	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
36	chr9:100757600-100772600	Strong transcription	Duodenum Mucosa	Duodenum
37	chr9:100757600-100784400	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
38	chr9:100757800-100772400	Strong transcription	Primary B cells from cord blood	blood
39	chr9:100757800-100782200	Strong transcription	Cortex derived primary cultured neurospheres	brain
40	chr9:100758400-100780800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
41	chr9:100759600-100771000	Strong transcription	Primary hematopoietic stem cells	blood
42	chr9:100760000-100769400	Strong transcription	A549	lung
43	chr9:100760400-100768000	Strong transcription	Muscle Satellite Cultured Cells	--
44	chr9:100760400-100768400	Strong transcription	Osteobl	bone
45	chr9:100760400-100768600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
46	chr9:100760400-100772400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
47	chr9:100760600-100770200	Weak transcription	Psoas Muscle	Psoas
48	chr9:100760800-100783600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
49	chr9:100761400-100770800	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
50	chr9:100761600-100772000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links