SP8

Sp8 transcription factor, the group of Zinc fingers C2H2-type|Sp transcription factors

Basic information

Region (hg38): 7:20782279-20786886

Links

ENSG00000164651 ∙ NCBI:221833 ∙ OMIM:608306 ∙ HGNC:19196 ∙ Uniprot:Q8IXZ3 ∙ AlphaFold ∙ GenCC ∙ jax ∙ Sfari ∙ GnomAD ∙ Pubmed ∙ ClinVar

Phenotypes

GenCC

Source: genCC

No genCC data.

ClinVar

This is a list of variants' phenotypes submitted to ClinVar and linked to the SP8 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the SP8 gene is commonly pathogenic or not.

In the table, we include only reliable ClinVar variants with their consequences to MANE Select, Mane Plus Clinical transcripts, or transcripts with TSL equals 1. Click the count to view the source variants.

Warning: slight differences between displayed counts and the number of variants in ClinVar may occur, primarily due to (1) the application of a different transcript and/or consequence by our variant effect predictor or (2) differences in clinical significance: we classify Benign/Likely benign variants as Likely benign and Pathogenic/Likely pathogenic variants as Likely pathogenic.

Variant type	Pathogenic	Likely pathogenic	VUS	Likely benign	Benign	Sum
synonymous				4	1	5
missense			39	1		40
nonsense						0
start loss						0
frameshift			1			1
inframe indel				1		1
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	40	6	1

Variants in SP8

This is a list of pathogenic ClinVar variants found in the SP8 region.

You can filter this list by clicking the number of variants in the Variants pathogenicity by type table.

Position	Type	Phenotype	Significance	ClinVar
7-20784307-G-A		not specified	Uncertain significance (Aug 09, 2021)
7-20784308-G-T		not specified	Uncertain significance (Aug 10, 2021)
7-20784324-G-C		not specified	Uncertain significance (Oct 17, 2023)
7-20784325-G-A		not specified	Uncertain significance (Jan 04, 2024)
7-20784325-G-T		not specified	Uncertain significance (Oct 17, 2023)
7-20784332-C-T		SP8-related disorder	Likely benign (Mar 01, 2025)
7-20784343-A-G		not specified	Uncertain significance (Feb 15, 2023)
7-20784357-C-T		not specified	Uncertain significance (Mar 08, 2024)
7-20784367-C-T		not specified	Uncertain significance (Apr 07, 2023)
7-20784379-T-C		not specified	Uncertain significance (Aug 20, 2024)
7-20784398-C-A		not specified	Uncertain significance (Jan 19, 2022)
7-20784406-C-T		not specified	Uncertain significance (Oct 01, 2024)
7-20784499-T-C		not specified	Uncertain significance (Jan 20, 2025)
7-20784505-C-G		not specified	Uncertain significance (Jun 30, 2023)
7-20784521-C-T		SP8-related disorder	Likely benign (Jan 11, 2024)
7-20784563-G-A		SP8-related disorder	Benign (Mar 20, 2019)
7-20784592-G-C		not specified	Uncertain significance (Dec 21, 2022)
7-20784775-C-G		not specified	Uncertain significance (Jun 26, 2024)
7-20784792-C-T		not specified	Uncertain significance (Feb 21, 2024)
7-20784808-G-C		not specified	Uncertain significance (Sep 22, 2023)
7-20784826-C-T		SP8-related disorder • not specified	Uncertain significance (Jun 30, 2022)
7-20784837-G-C		not specified	Uncertain significance (Aug 22, 2023)
7-20784838-C-T		not specified	Uncertain significance (Nov 12, 2024)
7-20784862-C-T		not specified	Uncertain significance (Feb 18, 2025)
7-20784908-T-C		SP8-related disorder	Likely benign (Dec 19, 2023)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
SP8	protein_coding	protein_coding	ENST00000418710	2	2600

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.966	0.0341	124744	0	3	124747	0.0000120

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	1.69	171	245	0.697	0.0000115	3180
Missense in Polyphen		31	81.46	0.38056		971
Synonymous	-1.47	130	110	1.18	0.00000565	1124
Loss of Function	3.00	0	10.5	0.00	4.52e-7	124

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.00	0.00
Ashkenazi Jewish	0.00	0.00
East Asian	0.00	0.00
Finnish	0.00	0.00
European (Non-Finnish)	0.0000265	0.0000265
Middle Eastern	0.00	0.00
South Asian	0.00	0.00
Other	0.00	0.00

dbNSFP

Source: dbNSFP

• Function: FUNCTION: Transcription factor which plays a key role in limb development. Positively regulates FGF8 expression in the apical ectodermal ridge (AER) and contributes to limb outgrowth in embryos (By similarity). {ECO:0000250}.

Recessive Scores

• pRec: 0.155

Haploinsufficiency Scores

• pHI: 0.921
• ghis: 0.463

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: E
• gene_indispensability_score: 0.822

Gene Damage Prediction

	All	Recessive	Dominant
Mendelian	Medium	Medium	Medium
Primary Immunodeficiency	Medium	Medium	Medium
Cancer	Medium	Medium	Medium

Mouse Genome Informatics

• Gene name: Sp8
• Phenotype: embryo phenotype; respiratory system phenotype; mortality/aging (the observable characteristics related to the ability of a mammalian organism to live and age that are manifested throughout development and life span); reproductive system phenotype; digestive/alimentary phenotype; nervous system phenotype (the observable morphological and physiological characteristics of the extensive, intricate network of electochemical structures in the body that is comprised of the brain, spinal cord, nerves, ganglia and parts of the receptor organs that are manifested through development and lifespan); limbs/digits/tail phenotype; cellular phenotype; renal/urinary system phenotype; skeleton phenotype; growth/size/body region phenotype; craniofacial phenotype

Gene ontology

• Biological process: regulation of transcription by RNA polymerase II;dorsal/ventral pattern formation;proximal/distal pattern formation;embryonic limb morphogenesis
• Cellular component: nucleus
• Molecular function: DNA-binding transcription factor activity, RNA polymerase II-specific;DNA binding;metal ion binding