Variant report

Variant	rs7152301
Chromosome Location	chr14:69832718-69832719
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr14:69832322..69833940-chr14:69843790..69845476,2	MCF-7	breast:
2	chr14:69830172..69832846-chr14:69834096..69836793,3	K562	blood:
3	chr14:69830050..69832763-chr14:69863489..69865045,2	K562	blood:
4	chr14:69822349..69827857-chr14:69829114..69832930,7	MCF-7	breast:

Variant related genes	Relation type
ENSG00000100632	Chromatin interaction
ENSG00000029364	Chromatin interaction

Extended variants
information (count: 56 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10130642	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10131686	0.83[AMR][1000 genomes]
rs10132626	0.85[CHD][hapmap];0.93[LWK][hapmap];0.91[YRI][hapmap];0.82[AFR][1000 genomes]
rs10137655	1.00[MEX][hapmap];0.82[MKK][hapmap];0.80[TSI][hapmap];0.86[YRI][hapmap];0.83[AMR][1000 genomes]
rs10137668	0.89[ASW][hapmap];1.00[MEX][hapmap];0.81[MKK][hapmap];0.80[TSI][hapmap];0.95[YRI][hapmap];0.83[AMR][1000 genomes]
rs10142738	0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10148090	0.96[AFR][1000 genomes];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10150434	0.83[AMR][1000 genomes]
rs11158808	0.82[MEX][hapmap]
rs11620664	0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11622130	0.96[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11624753	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11624756	0.82[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs11626070	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11844803	0.98[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11847666	0.84[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs12147167	0.83[AMR][1000 genomes]
rs12147983	0.83[AMR][1000 genomes]
rs12147999	0.83[AMR][1000 genomes]
rs12185028	0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12385913	1.00[ASW][hapmap];0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];0.88[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17106979	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17764155	1.00[CHD][hapmap];0.95[LWK][hapmap];0.95[YRI][hapmap];0.84[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs1952255	0.98[AFR][1000 genomes];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2015547	0.86[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs2061087	0.82[MEX][hapmap]
rs2061088	1.00[ASW][hapmap];0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];0.93[LWK][hapmap];0.84[MEX][hapmap];0.91[MKK][hapmap];0.88[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2168241	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28531897	0.86[ASN][1000 genomes]
rs28616724	0.98[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35286134	0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs36088452	0.83[AFR][1000 genomes]
rs45536240	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs55751520	0.83[AMR][1000 genomes]
rs57148905	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs57675317	0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs57941356	0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs59116152	0.83[AMR][1000 genomes]
rs59181716	0.83[AMR][1000 genomes]
rs60238702	0.83[AMR][1000 genomes]
rs61436917	0.83[AMR][1000 genomes]
rs61564515	0.83[AMR][1000 genomes]
rs7143230	0.98[AFR][1000 genomes];0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7155178	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7161463	0.81[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs72722198	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72722199	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72723815	0.98[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72723830	0.96[AFR][1000 genomes];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72723840	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72723847	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs72723850	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72723857	0.83[AMR][1000 genomes]
rs8016334	0.86[ASN][1000 genomes]
rs8016618	0.92[AFR][1000 genomes];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9630395	0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7152301	GALNTL1	cis	cerebellum	SCAN

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:69815600-69838800	Weak transcription	Brain Germinal Matrix	brain
2	chr14:69818600-69842800	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr14:69821000-69838800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr14:69821000-69839600	Weak transcription	Fetal Brain Female	brain
5	chr14:69821800-69852400	Weak transcription	Spleen	Spleen
6	chr14:69824200-69864000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr14:69827600-69838800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr14:69828000-69838800	Weak transcription	Primary B cells from cord blood	blood
9	chr14:69828000-69838800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr14:69828000-69843000	Weak transcription	GM12878-XiMat	blood
11	chr14:69830000-69847200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr14:69830200-69842400	Weak transcription	NHDF-Ad	bronchial
13	chr14:69830200-69843000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
14	chr14:69830600-69841400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
15	chr14:69831200-69838800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr14:69831200-69841600	Weak transcription	Brain Anterior Caudate	brain
17	chr14:69831200-69842200	Weak transcription	Brain Hippocampus Middle	brain
18	chr14:69831200-69842800	Weak transcription	Brain Inferior Temporal Lobe	brain
19	chr14:69831200-69852400	Weak transcription	Brain Substantia Nigra	brain
20	chr14:69831400-69841200	Weak transcription	Cortex derived primary cultured neurospheres	brain
21	chr14:69831400-69843200	Weak transcription	Brain Cingulate Gyrus	brain
22	chr14:69831600-69836800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr14:69831600-69841200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
24	chr14:69831600-69843000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
25	chr14:69831800-69841600	Weak transcription	Stomach Smooth Muscle	stomach
26	chr14:69832000-69842400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr14:69832400-69839400	Weak transcription	A549	lung
28	chr14:69832400-69842400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin

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