ZNF23 (zinc finger protein 23) - Rat Genome Database

Name: ZNF23
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

Gene: ZNF23 (zinc finger protein 23) Sus scrofa

Analyze

Symbol:

ZNF23

Name:

zinc finger protein 23

RGD ID:

13918110

Description:

ENCODES a protein that exhibits sequence-specific double-stranded DNA binding (ortholog); INVOLVED IN regulation of DNA-templated transcription (inferred); ASSOCIATED WITH autosomal dominant dyskeratosis congenita 6 (ortholog); genetic disease (ortholog); hepatocellular carcinoma (ortholog)

Type:

protein-coding

RefSeq Status:

RGD Orthologs

Alliance Genes

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	ZNF23 (zinc finger protein 23)	HGNC	EggNOG, Ensembl, NCBI, OMA, OrthoDB, Panther, Treefam
Mus musculus (house mouse):	Zfp612 (zinc finger protein 612)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus norvegicus (Norway rat):	Zfp612 (zinc finger protein 612)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Znf23 (zinc finger protein 23)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	ZNF23 (zinc finger protein 23)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	ZNF23 (zinc finger protein 23)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Znf23 (zinc finger protein 23)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	ZNF23 (zinc finger protein 23)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Znf23 (zinc finger protein 23)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline

Latest Assembly:

Sscrofa11.1 - Pig Sscrofa11.1 Assembly

Position:

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	6	14,463,304 - 14,480,863 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	6	14,463,135 - 14,480,783 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

autosomal dominant dyskeratosis congenita 6 (ISO)

genetic disease (ISO)

hepatocellular carcinoma (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

regulation of DNA-templated transcription (IEA)

regulation of transcription by RNA polymerase II (IBA)

Cellular Component

nucleus (IBA)

Molecular Function

DNA-binding transcription factor activity, RNA polymerase II-specific (IBA)

metal ion binding (IEA)

protein binding (ISO)

RNA polymerase II cis-regulatory region sequence-specific DNA binding (IBA)

sequence-specific double-stranded DNA binding (ISO)

References

Additional References at PubMed

PMID:30032202

Genomics

Comparative Map Data

ZNF23
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	6	14,463,304 - 14,480,863 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	6	14,463,135 - 14,480,783 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1

ZNF23
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	16	71,447,597 - 71,462,247 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	16	71,447,597 - 71,463,095 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	16	71,481,500 - 71,496,150 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	16	70,039,001 - 70,053,618 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	16	70,039,000 - 70,053,618	NCBI
Celera	16	55,797,355 - 55,811,972 (-)	NCBI		Celera
Cytogenetic Map	16	q22.2	NCBI
HuRef	16	57,249,546 - 57,264,163 (-)	NCBI		HuRef
CHM1_1	16	72,894,355 - 72,908,972 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	16	77,264,821 - 77,279,471 (-)	NCBI		T2T-CHM13v2.0

Zfp612
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	8	110,806,331 - 110,819,385 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	8	110,806,378 - 110,819,373 (+)	Ensembl		GRCm39 Ensembl
GRCm38	8	110,079,705 - 110,092,753 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	8	110,079,746 - 110,092,741 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	8	112,603,634 - 112,616,652 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	8	112,968,891 - 112,979,325 (+)	NCBI		MGSCv36	mm8
Celera	8	114,301,904 - 114,315,055 (+)	NCBI		Celera
Cytogenetic Map	8	D3	NCBI
cM Map	8	57.41	NCBI

Zfp612
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	19	54,963,400 - 54,976,888 (+)	NCBI		GRCr8
mRatBN7.2	19	38,053,953 - 38,071,196 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	19	38,053,967 - 38,067,455 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	19	44,860,375 - 44,873,845 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	19	45,513,729 - 45,527,199 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	19	47,823,324 - 47,836,794 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	19	41,556,907 - 41,570,352 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	19	41,559,487 - 41,567,013 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	19	52,384,460 - 52,398,149 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	19	39,961,602 - 39,975,049 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	19	39,966,434 - 39,977,350 (+)	NCBI
Celera	19	37,451,827 - 37,465,266 (+)	NCBI		Celera
Cytogenetic Map	19	q12	NCBI

Znf23
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955484	4,161,259 - 4,170,157 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955484	4,162,454 - 4,174,816 (-)	NCBI	ChiLan1.0	ChiLan1.0

ZNF23
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	18	82,697,257 - 82,711,980 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	16	88,630,747 - 88,645,541 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	16	53,548,640 - 53,563,433 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	16	71,284,708 - 71,299,436 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	16	71,284,714 - 71,299,418 (-)	Ensembl	panpan1.1		panPan2

ZNF23
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	5	77,246,374 - 77,260,761 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	5	77,246,667 - 77,260,350 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	5	77,208,288 - 77,222,683 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	5	77,685,240 - 77,699,637 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	5	77,685,249 - 77,699,563 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	5	77,505,663 - 77,519,927 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	5	77,328,758 - 77,343,156 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	5	77,827,669 - 77,842,064 (-)	NCBI		UU_Cfam_GSD_1.0

Znf23
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024409349	37,295,771 - 37,326,195 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936475	22,272,514 - 22,293,278 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936475	22,283,924 - 22,293,074 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

ZNF23
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	5	54,578,420 - 54,609,302 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
Vero_WHO_p1.0	NW_023666047	17,386,913 - 17,417,906 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Znf23
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624746	13,633,902 - 13,639,348 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624746	13,633,182 - 13,676,121 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in ZNF23
652 total Variants

Expression

RNA-SEQ Expression

High: > 1000 TPM value Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM Below Cutoff: < 0.5 TPM

	alimentary part of gastrointestinal system	circulatory system	endocrine system	hemolymphoid system	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system
High
Medium			1			2
Low	10	4	2	5	2	21	2	3	3
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_021093817	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AEMK02000039	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSSSCT00000003034 ⟹ ENSSSCP00000002955

Type:

CODING

Position:

Pig Assembly	Chr	Position (strand)	Source
Sscrofa11.1 Ensembl	6	14,463,304 - 14,480,863 (-)	Ensembl

RefSeq Acc Id:

XM_021093817 ⟹ XP_020949476

Type:

CODING

Position:

Pig Assembly	Chr	Position (strand)	Source
Sscrofa11.1	6	14,463,135 - 14,480,783 (-)	NCBI

Sequence:

show sequence

CCGGCAGCGCCTAGGAGCTGTCGGCAGCAGAGCACCACTGCTTCTCTCAGAGGGAGACCAAGTG
CTGGCAGCCATGCTTCTGACAGCCTGGCTCCAGAAGTTGGTGACCTTCGAGGACGTGGCTGTGT
ACTTCACCCAGACGGAGTGGGACGGCCTGTCCCCTGCACAGAGGGCCCTGTACAGGGATGTGAT
GCTGGAGAATTATGGGAATGTGGCCTCCCTGGGATTTCCTCTTCTCAAGCCTGCTGTGATTGCA
CAACTGGAGGGAGGAGTTGAGCTGGGGGGCCCATCTCCACTGGCTTCTGGAACAGGCTCAGGCC
CCGAGGACCTCTGGACTGATATTGAGATCCAGACTGACAATAATTTGACAGAGGACATGTATGA
AGAAAAACATAATACATCATTTGAACTTCAAAGGGACTTTTCCCAGGAAACAGACTTTTCAGAA
GTCTTTATTCTAGAGAAACACCAGGAAGTCCATTCAGTAGGAAGTATGAAGAAAGAAAACAGTG
ATGTTGATGGGACAGTTGAAGACAATACAGGCCCCATGGAGGAGTGTTTCTTTACTCAAAGTCC
AAATTTGGATAAATGTCATACCATCTCTACTGGGGAGCAACCCNCTGAGTGTAAAGGATTCAAG
AAAGTCTTCAGCTTTGACACAAAACTTATGCAGCATGAAATAATTAATTTCAGGGAAAGACCTT
TCAAGTGTGAAAAATTAATGGAAACCTTTAGGAGTAACGCTCAGCTTAATCAGAATCAATATAG
CTACACTAAGGAAAAGCCCTATCAGTGTAAGGAGTGTGGCAAAGCCTTTAGTGTTAATGCAAAA
TTAATTTGGCATCAAAGACTTCACAGTGGGGAGAAGCCCTTCAAATGTGTGGAGTGTGGGAAAA
GCTTCAGTTATAGTTCCCATTATATCACACATCAGACAATCCACAGTGGGGAGAAGCCATATCA
GTGTAAGGTGTGTGGTAAAGCCTTCAGTGTTAATGGGAGTCTAAGTAGGCATCAGAGAATCCAT
ACAGGAGAGAAGCCCTATCAGTGCAAGGAGTGTGGGAATGGTTTTAGCTGCAGTTCTGCATATA
TCACGCACCAGAGAGTCCATACTGGAGAGAAACCTTATGCATGTAATGACTGTGGGAAAGCTTT
CAATGTTAATGCAAAATTAATTCAACATCAGAGAATCCACACTGGAGAGAAACCTTATGAATGT
AATGAGTGTGGGAAAGGCTTCAGGTGCAGCTCCCAGCTTAGGCAGCATCAGAGCATCCACACTG
GAGTGAGGCCCTATCAGTGTAAGGAGTGTGGAAAAGCCTTTAGTAATAATGCAAAACTCATACA
GCATCAAAGAATTCACACAGGGGAGAAACCCTATGAGTGTACTGAATGTGGAAAAGCCTTTAGT
GTCAAAGGGAAGTTAATCCAGCACCAGAGGATCCACACAGGCGAGAAACCCTATGACTGTAAAG
AATGTGGGAAAGCTTTTAGGTGTAATGCCCAGCTTCGGCAACACTTGAGAATCCACACTGGGGA
GAAGCCATATGAATGTAATGAATGTGGAAAGGCCTTCAACGTTAATGCAAAACTAATGCAGCAT
CAGAGGATTCACACTGGGGAGAAACCTTTTGAATGTAATGAGTGTGGGAAATGCTTTACTTCTA
AAAGAAACCTACTTGATCATCACCGAATCCACACTGGAGAAAAGCCTTATCAATGTAAGGAATG
TGGGAAAGCCTTTAGCATCAATGCCAAACTAACTAGGCACCAGAGAATACACACTGGGGAGAAA
CCTTTCAAATGCATGGAATGTGAGAAAGCATTTAGCTGTAGTTCTGACTATATTGTGCATCAGA
GAATTCATACTGGAGAGAAACCCTTTCAATGTAAGGAGTGTGGAAAAGCCTTCCATGTTAATGC
CCATTTAATTCGGCATCAGAGAAGCCACACTGGAGAGAAACCGTTCAGATGTGTGGAGTGTGGC
AAAGGCTTCAGCTATAGTTCTGACTGTATTATACATCAGACTGTCCATACGTGGAAGAAACATT
ATATGTGTAATGTGTGTGGGAAAGCCTTCAGATTTGGCTTCCAACTTAGTCAGCATCAGAGTGT
CCATAGTGAAGGAAAATCCTAATGAGAAGGATGTAGAAAACTGAAGGTTAATGCTGAATTGGAT
TAAGTATCCTCGGATTCTCTTAGGGTGAAAAACCCTGAAAAGGAAATGAATATGGCAGAGTCTT
CACAAGAAAACAAATCCTTTCCATTTGATTCAATATAAAATTAGGAATAATGACCAATTT

hide sequence

Protein Sequences


Protein RefSeqs	XP_020949476	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSSSCP00000002955.4

RefSeq Acc Id:

XP_020949476 ⟸ XM_021093817

- Sequence:

show sequence

MLLTAWLQKLVTFEDVAVYFTQTEWDGLSPAQRALYRDVMLENYGNVASLGFPLLKPAVIAQLE
GGVELGGPSPLASGTGSGPEDLWTDIEIQTDNNLTEDMYEEKHNTSFELQRDFSQETDFSEVFI
LEKHQEVHSVGSMKKENSDVDGTVEDNTGPMEECFFTQSPNLDKCHTISTGEQPXECKGFKKVF
SFDTKLMQHEIINFRERPFKCEKLMETFRSNAQLNQNQYSYTKEKPYQCKECGKAFSVNAKLIW
HQRLHSGEKPFKCVECGKSFSYSSHYITHQTIHSGEKPYQCKVCGKAFSVNGSLSRHQRIHTGE
KPYQCKECGNGFSCSSAYITHQRVHTGEKPYACNDCGKAFNVNAKLIQHQRIHTGEKPYECNEC
GKGFRCSSQLRQHQSIHTGVRPYQCKECGKAFSNNAKLIQHQRIHTGEKPYECTECGKAFSVKG
KLIQHQRIHTGEKPYDCKECGKAFRCNAQLRQHLRIHTGEKPYECNECGKAFNVNAKLMQHQRI
HTGEKPFECNECGKCFTSKRNLLDHHRIHTGEKPYQCKECGKAFSINAKLTRHQRIHTGEKPFK
CMECEKAFSCSSDYIVHQRIHTGEKPFQCKECGKAFHVNAHLIRHQRSHTGEKPFRCVECGKGF
SYSSDCIIHQTVHTWKKHYMCNVCGKAFRFGFQLSQHQSVHSEGKS

hide sequence

RefSeq Acc Id:

ENSSSCP00000002955 ⟸ ENSSSCT00000003034

Protein Domains

C2H2-type KRAB

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSSSCG00000002738	Ensembl, UniProtKB/TrEMBL
Ensembl Transcript	ENSSSCT00000003034.5	UniProtKB/TrEMBL
Gene3D-CATH	Classic Zinc Finger	UniProtKB/TrEMBL
InterPro	KRAB	UniProtKB/TrEMBL
	Znf_C2H2_sf	UniProtKB/TrEMBL
	Znf_C2H2_type	UniProtKB/TrEMBL
NCBI Gene	ZNF23	ENTREZGENE
PANTHER	ZINC FINGER PROTEIN	UniProtKB/TrEMBL
	ZINC FINGER PROTEIN 582	UniProtKB/TrEMBL
Pfam	zf-C2H2	UniProtKB/TrEMBL
PROSITE	KRAB	UniProtKB/TrEMBL
	ZINC_FINGER_C2H2_1	UniProtKB/TrEMBL
	ZINC_FINGER_C2H2_2	UniProtKB/TrEMBL
SMART	ZnF_C2H2	UniProtKB/TrEMBL
Superfamily-SCOP	SSF57667	UniProtKB/TrEMBL
UniProt	F1S3C9_PIG	UniProtKB/TrEMBL

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

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