SZGR2

Summary ?

GeneID	11278
Symbol	KLF12
Synonyms	AP-2rep\|AP2REP\|HSPC122
Description	Kruppel-like factor 12
Reference	MIM:607531\|HGNC:HGNC:6346\|Ensembl:ENSG00000118922\|HPRD:06336\|Vega:OTTHUMG00000017078
Gene type	protein-coding
Map location	13q22
Pascal p-value	0.002
Sherlock p-value	0.234
TADA p-value	0.01
Fetal beta	1.001
DMG	1 (# studies)
eGene	Myers' cis & trans
Support	CompositeSet

Gene in Data Sources

Gene set name	Method of gene set	Description	Info
CV:PGCnp	Genome-wide Association Study	GWAS
DMG:Jaffe_2016	Genome-wide DNA methylation analysis	This dataset includes 2,104 probes/CpGs associated with SZ patients (n=108) compared to 136 controls at Bonferroni-adjusted P < 0.05.	1
DNM:Xu_2012	Whole Exome Sequencing analysis	De novo mutations of 4 genes were identified by exome sequencing of 795 samples in this study

Section I. Genetics and epigenetics annotation

DNM table

Gene	Chromosome	Position	Ref	Alt	Transcript	AA change	Mutation type	Sift	CG46	Trait	Study
KLF12	chr13	74289537	G	C	NM_007249	p.332S>C	missense			Schizophrenia	DNM:Xu_2012

Differentially methylated gene

Probe	Chromosome	Position	Nearest gene	P (dis)	Beta (dis)	FDR (dis)	Study
cg10959786	13	74708124	KLF12	2.7E-8	-0.01	8.55E-6	DMG:Jaffe_2016

eQTL annotation

SNP ID	Chromosome	Position	eGene	Gene Entrez ID	qvalue	eQTL type
rs1561519	chr2	35823020	KLF12	11278	0.01	trans
rs1371418	chr2	35830333	KLF12	11278	0.03	trans
rs7570146	chr2	35844751	KLF12	11278	0.01	trans
rs1439689	chr2	35851217	KLF12	11278	0.14	trans
rs1439691	chr2	35851281	KLF12	11278	0.01	trans
rs9355872	chr6	161534332	KLF12	11278	0.17	trans
rs9548306	chr13	38876011	KLF12	11278	0.17	trans

Section II. Transcriptome annotation

General gene expression (GTEx)

Gene expression during devlopment (BrainCloud)

Footnote:
A total of 269 time points ploted, with n=38 fetal samples (x=1:38). Each triangle represents one time point.

Gene expression of temporal and spatial changes (BrainSpan)

Footnote:
SC: sub-cortical regions; SM: sensory-motor regions; FC: frontal cortex; and TP: temporal-parietal cortex
ST1: fetal (13 - 26 postconception weeks), ST2: early infancy to late childhood (4 months to 11 years), and ST3: adolescence to adulthood (13 - 23 years)
The bar shown representes the lower 25% and upper 25% of the expression distribution.

No co-expressed genes in brain regions

Section III. Gene Ontology annotation

Molecular function	GO term	Evidence	Neuro keywords	PubMed ID
GO:0003700	transcription factor activity	IDA		16615998
GO:0003714	transcription corepressor activity	TAS		10704285
GO:0008270	zinc ion binding	IEA		-
GO:0046872	metal ion binding	IEA		-
Biological process	GO term	Evidence	Neuro keywords	PubMed ID
GO:0000122	negative regulation of transcription from RNA polymerase II promoter	IDA		16615998
GO:0006350	transcription	IEA		-
GO:0045944	positive regulation of transcription from RNA polymerase II promoter	IEA		-
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005622	intracellular	IEA		-
GO:0005634	nucleus	IEA		-

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
PARENT MTOR SIGNALING UP	567	375	All SZGR 2.0 genes in this pathway
ZHONG RESPONSE TO AZACITIDINE AND TSA UP	183	119	All SZGR 2.0 genes in this pathway
ZHOU INFLAMMATORY RESPONSE LIVE DN	384	220	All SZGR 2.0 genes in this pathway
THUM SYSTOLIC HEART FAILURE DN	244	147	All SZGR 2.0 genes in this pathway
ZHOU INFLAMMATORY RESPONSE FIMA UP	544	308	All SZGR 2.0 genes in this pathway
ODONNELL METASTASIS UP	82	58	All SZGR 2.0 genes in this pathway
GAUSSMANN MLL AF4 FUSION TARGETS C UP	170	114	All SZGR 2.0 genes in this pathway
KAN RESPONSE TO ARSENIC TRIOXIDE	123	80	All SZGR 2.0 genes in this pathway
SCHLOSSER SERUM RESPONSE UP	134	93	All SZGR 2.0 genes in this pathway
AMUNDSON RESPONSE TO ARSENITE	217	143	All SZGR 2.0 genes in this pathway
PUJANA ATM PCC NETWORK	1442	892	All SZGR 2.0 genes in this pathway
BUYTAERT PHOTODYNAMIC THERAPY STRESS UP	811	508	All SZGR 2.0 genes in this pathway
SCHAEFFER PROSTATE DEVELOPMENT 48HR DN	428	306	All SZGR 2.0 genes in this pathway
IVANOVA HEMATOPOIESIS STEM CELL AND PROGENITOR	681	420	All SZGR 2.0 genes in this pathway
MASSARWEH TAMOXIFEN RESISTANCE UP	578	341	All SZGR 2.0 genes in this pathway
MELLMAN TUT1 TARGETS DN	47	29	All SZGR 2.0 genes in this pathway
BRUINS UVC RESPONSE VIA TP53 GROUP A	898	516	All SZGR 2.0 genes in this pathway
PURBEY TARGETS OF CTBP1 NOT SATB1 DN	448	282	All SZGR 2.0 genes in this pathway
PECE MAMMARY STEM CELL DN	146	88	All SZGR 2.0 genes in this pathway

Section VI. microRNA annotation

miRNA family	Target position			miRNA ID	miRNA seq
miRNA family	UTR start	UTR end	Match method	miRNA ID	miRNA seq
miR-101	9108	9114	1A	hsa-miR-101	UACAGUACUGUGAUAACUGAAG
miR-124.1	4018	4024	1A	hsa-miR-124a	UUAAGGCACGCGGUGAAUGCCA
miR-137	1565	1572	1A,m8	hsa-miR-137	UAUUGCUUAAGAAUACGCGUAG
				hsa-miR-137	UAUUGCUUAAGAAUACGCGUAG
				hsa-miR-137	UAUUGCUUAAGAAUACGCGUAG
miR-138	8339	8345	1A	hsa-miR-138^brain	AGCUGGUGUUGUGAAUC
				hsa-miR-138^brain	AGCUGGUGUUGUGAAUC
				hsa-miR-138^brain	AGCUGGUGUUGUGAAUC
miR-141/200a	9220	9226	1A	hsa-miR-141	UAACACUGUCUGGUAAAGAUGG
miR-141/200a	9220	9226	1A	hsa-miR-200a	UAACACUGUCUGGUAACGAUGU
miR-144	9108	9114	1A	hsa-miR-144	UACAGUAUAGAUGAUGUACUAG
miR-151	8463	8470	1A,m8	hsa-miR-151^brain	ACUAGACUGAAGCUCCUUGAGG
miR-17-5p/20/93.mr/106/519.d	3468	3474	m8	hsa-miR-17-5p	CAAAGUGCUUACAGUGCAGGUAGU
				hsa-miR-20a^brain	UAAAGUGCUUAUAGUGCAGGUAG
				hsa-miR-106a	AAAAGUGCUUACAGUGCAGGUAGC
				hsa-miR-106b^SZ	UAAAGUGCUGACAGUGCAGAU
				hsa-miR-20b^SZ	CAAAGUGCUCAUAGUGCAGGUAG
				hsa-miR-519d	CAAAGUGCCUCCCUUUAGAGUGU
				hsa-miR-17-5p	CAAAGUGCUUACAGUGCAGGUAGU
				hsa-miR-20a^brain	UAAAGUGCUUAUAGUGCAGGUAG
				hsa-miR-106a	AAAAGUGCUUACAGUGCAGGUAGC
				hsa-miR-106b^SZ	UAAAGUGCUGACAGUGCAGAU
				hsa-miR-20b^SZ	CAAAGUGCUCAUAGUGCAGGUAG
				hsa-miR-519d	CAAAGUGCCUCCCUUUAGAGUGU
miR-188	1077	1083	m8	hsa-miR-188	CAUCCCUUGCAUGGUGGAGGGU
miR-194	469	475	m8	hsa-miR-194	UGUAACAGCAACUCCAUGUGGA
miR-199	901	907	m8	hsa-miR-199a	CCCAGUGUUCAGACUACCUGUUC
miR-199	901	907	m8	hsa-miR-199b	CCCAGUGUUUAGACUAUCUGUUC
miR-200bc/429	3740	3746	m8	hsa-miR-200b	UAAUACUGCCUGGUAAUGAUGAC
				hsa-miR-200c	UAAUACUGCCGGGUAAUGAUGG
				hsa-miR-429	UAAUACUGUCUGGUAAAACCGU
				hsa-miR-200b	UAAUACUGCCUGGUAAUGAUGAC
				hsa-miR-200c	UAAUACUGCCGGGUAAUGAUGG
				hsa-miR-429	UAAUACUGUCUGGUAAAACCGU
miR-203.1	2886	2892	1A	hsa-miR-203	UGAAAUGUUUAGGACCACUAG
miR-204/211	1076	1082	m8	hsa-miR-204^brain	UUCCCUUUGUCAUCCUAUGCCU
miR-204/211	1076	1082	m8	hsa-miR-211	UUCCCUUUGUCAUCCUUCGCCU
miR-205	9358	9364	m8	hsa-miR-205	UCCUUCAUUCCACCGGAGUCUG
miR-205	9358	9364	m8	hsa-miR-205	UCCUUCAUUCCACCGGAGUCUG
miR-217	3737	3744	1A,m8	hsa-miR-217	UACUGCAUCAGGAACUGAUUGGAU
miR-218	2922	2928	m8	hsa-miR-218^brain	UUGUGCUUGAUCUAACCAUGU
miR-218	2922	2928	m8	hsa-miR-218^brain	UUGUGCUUGAUCUAACCAUGU
miR-224	8441	8447	1A	hsa-miR-224	CAAGUCACUAGUGGUUCCGUUUA
miR-25/32/92/363/367	1745	1751	1A	hsa-miR-25^brain	CAUUGCACUUGUCUCGGUCUGA
				hsa-miR-32	UAUUGCACAUUACUAAGUUGC
				hsa-miR-92	UAUUGCACUUGUCCCGGCCUG
				hsa-miR-367	AAUUGCACUUUAGCAAUGGUGA
				hsa-miR-92b^SZ	UAUUGCACUCGUCCCGGCCUC
				hsa-miR-25^brain	CAUUGCACUUGUCUCGGUCUGA
				hsa-miR-32	UAUUGCACAUUACUAAGUUGC
				hsa-miR-92	UAUUGCACUUGUCCCGGCCUG
				hsa-miR-367	AAUUGCACUUUAGCAAUGGUGA
				hsa-miR-92b^SZ	UAUUGCACUCGUCCCGGCCUC
miR-27	9301	9307	1A	hsa-miR-27a^brain	UUCACAGUGGCUAAGUUCCGC
miR-27	9301	9307	1A	hsa-miR-27b^brain	UUCACAGUGGCUAAGUUCUGC
miR-29	1339	1346	1A,m8	hsa-miR-29a^SZ	UAGCACCAUCUGAAAUCGGUU
				hsa-miR-29b^SZ	UAGCACCAUUUGAAAUCAGUGUU
				hsa-miR-29c^SZ	UAGCACCAUUUGAAAUCGGU
miR-329	8481	8487	m8	hsa-miR-329^brain	AACACACCUGGUUAACCUCUUU
miR-33	8294	8300	1A	hsa-miR-33	GUGCAUUGUAGUUGCAUUG
miR-33	8294	8300	1A	hsa-miR-33b	GUGCAUUGCUGUUGCAUUGCA
miR-34/449	4249	4255	m8	hsa-miR-34a^brain	UGGCAGUGUCUUAGCUGGUUGUU
				hsa-miR-34c	AGGCAGUGUAGUUAGCUGAUUGC
				hsa-miR-449	UGGCAGUGUAUUGUUAGCUGGU
				hsa-miR-449b	AGGCAGUGUAUUGUUAGCUGGC
miR-342	8227	8233	1A	hsa-miR-342^brain	UCUCACACAGAAAUCGCACCCGUC
miR-34b	4250	4256	m8	hsa-miR-34b	UAGGCAGUGUCAUUAGCUGAUUG
miR-370	57	63	m8	hsa-miR-370^brain	GCCUGCUGGGGUGGAACCUGG
miR-370	57	63	m8	hsa-miR-370^brain	GCCUGCUGGGGUGGAACCUGG
miR-376	9289	9295	1A	hsa-miR-376a	AUCAUAGAGGAAAAUCCACGU
miR-376	9289	9295	1A	hsa-miR-376b	AUCAUAGAGGAAAAUCCAUGUU
miR-376c	8180	8186	m8	hsa-miR-376c	AACAUAGAGGAAAUUCCACG
miR-381	9053	9059	m8	hsa-miR-381	UAUACAAGGGCAAGCUCUCUGU
miR-381	9053	9059	m8	hsa-miR-381	UAUACAAGGGCAAGCUCUCUGU
miR-409-5p	163	169	m8	hsa-miR-409-5p	AGGUUACCCGAGCAACUUUGCA
miR-410	8989	8995	1A	hsa-miR-410	AAUAUAACACAGAUGGCCUGU
miR-539	7353	7360	1A,m8	hsa-miR-539	GGAGAAAUUAUCCUUGGUGUGU
miR-542-3p	825	831	m8	hsa-miR-542-3p	UGUGACAGAUUGAUAACUGAAA
miR-7	4218	4225	1A,m8	hsa-miR-7^SZ	UGGAAGACUAGUGAUUUUGUUG
miR-9	3776	3782	m8	hsa-miR-9^SZ	UCUUUGGUUAUCUAGCUGUAUGA
miR-93.hd/291-3p/294/295/302/372/373/520	3467	3473	m8	hsa-miR-93^brain	AAAGUGCUGUUCGUGCAGGUAG
				hsa-miR-302a	UAAGUGCUUCCAUGUUUUGGUGA
				hsa-miR-302b	UAAGUGCUUCCAUGUUUUAGUAG
				hsa-miR-302c	UAAGUGCUUCCAUGUUUCAGUGG
				hsa-miR-302d	UAAGUGCUUCCAUGUUUGAGUGU
				hsa-miR-372	AAAGUGCUGCGACAUUUGAGCGU
				hsa-miR-373	GAAGUGCUUCGAUUUUGGGGUGU
				hsa-miR-520e	AAAGUGCUUCCUUUUUGAGGG
				hsa-miR-520a	AAAGUGCUUCCCUUUGGACUGU
				hsa-miR-520b	AAAGUGCUUCCUUUUAGAGGG
				hsa-miR-520c	AAAGUGCUUCCUUUUAGAGGGUU
				hsa-miR-520d	AAAGUGCUUCUCUUUGGUGGGUU

SZ: miRNAs which differentially expressed in brain cortex of schizophrenia patients comparing with control samples using microarray. Click here to see the list of SZ related miRNAs.
Brain: miRNAs which are expressed in brain based on miRNA microarray expression studies. Click here to see the list of brain related miRNAs.

Gene Page: KLF12