Variant report

Variant	rs10950895
Chromosome Location	chr7:22198814-22198815
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 53 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs10228358	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10242092	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10250341	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10250355	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10255486	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10268307	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10268516	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10271658	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10282222	1.00[CHB][hapmap]
rs11763898	1.00[CHB][hapmap]
rs11766861	1.00[YRI][hapmap]
rs12530484	1.00[CHB][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes]
rs12533150	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13223956	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1345251	0.91[MKK][hapmap]
rs1981598	1.00[CEU][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2079478	1.00[CHB][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes]
rs28411164	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28435496	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28450495	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28587984	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28656168	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28716840	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41273945	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41273948	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41273951	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs41273957	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41273963	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4291165	1.00[CEU][hapmap];1.00[CHB][hapmap];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4496855	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4590334	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4640962	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4719686	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4722102	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4722104	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4722105	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4722106	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4722108	1.00[CHB][hapmap];0.84[MKK][hapmap]
rs4722110	1.00[CHB][hapmap]
rs5014150	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6461640	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];0.90[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6461641	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6944433	0.93[AFR][1000 genomes]
rs6948973	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6949461	1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6960216	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6965394	1.00[CHB][hapmap];0.91[MKK][hapmap]
rs6971344	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6980127	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7796738	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7808688	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7809342	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9886139	1.00[CHB][hapmap]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10950895	SCGB1D2	trans	brain	seeQTL

Chromatin state (count:55 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:22159800-22214000	Weak transcription	Small Intestine	intestine
2	chr7:22176400-22203200	Weak transcription	Stomach Mucosa	stomach
3	chr7:22179600-22206600	Weak transcription	Fetal Stomach	stomach
4	chr7:22181400-22199000	Weak transcription	Gastric	stomach
5	chr7:22184600-22240600	Weak transcription	Colonic Mucosa	Colon
6	chr7:22187000-22204800	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr7:22187200-22199000	Weak transcription	Fetal Brain Male	brain
8	chr7:22190000-22232800	Weak transcription	Aorta	Aorta
9	chr7:22192600-22199400	Strong transcription	HepG2	liver
10	chr7:22192600-22200800	Strong transcription	Fetal Intestine Large	intestine
11	chr7:22192600-22208200	Strong transcription	Liver	Liver
12	chr7:22193600-22207800	Weak transcription	Placenta	Placenta
13	chr7:22193800-22232000	Weak transcription	Adipose Nuclei	Adipose
14	chr7:22194000-22201600	Genic enhancers	Brain Cingulate Gyrus	brain
15	chr7:22194200-22199000	Strong transcription	Fetal Thymus	thymus
16	chr7:22194200-22201200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr7:22194200-22202600	Weak transcription	HUES6 Cell Line	embryonic stem cell
18	chr7:22194200-22223200	Weak transcription	H9 Cell Line	embryonic stem cell
19	chr7:22194400-22218200	Weak transcription	HUES64 Cell Line	embryonic stem cell
20	chr7:22194400-22219400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
21	chr7:22194400-22227200	Weak transcription	Sigmoid Colon	Sigmoid Colon
22	chr7:22194400-22232400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr7:22194600-22221200	Weak transcription	HUES48 Cell Line	embryonic stem cell
24	chr7:22195200-22204000	Strong transcription	Rectal Mucosa Donor 31	rectum
25	chr7:22196000-22201200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
26	chr7:22196000-22204200	Strong transcription	Dnd41	blood
27	chr7:22196200-22213800	Weak transcription	GM12878-XiMat	blood
28	chr7:22196400-22200400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr7:22196400-22200600	Weak transcription	Osteobl	bone
30	chr7:22196400-22213800	Weak transcription	Primary B cells from cord blood	blood
31	chr7:22196600-22213600	Weak transcription	HUVEC	blood vessel
32	chr7:22196600-22214000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
33	chr7:22196800-22216800	Weak transcription	Spleen	Spleen
34	chr7:22196800-22218000	Weak transcription	H1 Cell Line	embryonic stem cell
35	chr7:22197400-22199400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr7:22197600-22206600	Weak transcription	Fetal Kidney	kidney
37	chr7:22197600-22213400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
38	chr7:22197600-22213400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr7:22197600-22213400	Weak transcription	Thymus	Thymus
40	chr7:22197800-22206000	Weak transcription	Duodenum Mucosa	Duodenum
41	chr7:22197800-22206200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
42	chr7:22198000-22199400	Weak transcription	Fetal Intestine Small	intestine
43	chr7:22198000-22199400	Weak transcription	Left Ventricle	heart
44	chr7:22198000-22200200	Weak transcription	Pancreas	Pancrea
45	chr7:22198000-22212800	Weak transcription	NHEK	skin
46	chr7:22198000-22223600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
47	chr7:22198200-22199400	Strong transcription	Brain Anterior Caudate	brain
48	chr7:22198200-22200200	Weak transcription	Lung	lung
49	chr7:22198200-22201000	Weak transcription	Brain Hippocampus Middle	brain
50	chr7:22198200-22208000	Weak transcription	Rectal Mucosa Donor 29	rectum

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