smad5 SMAD family member 5 [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: smad5provided by ZNC
Official Full Name: SMAD family member 5provided by ZNC
Primary source: ZFIN:ZDB-GENE-990603-9
See related: Ensembl:ENSDARG00000037238 AllianceGenome:ZFIN:ZDB-GENE-990603-9
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: SBN; mad; pgy; smd5; madh5; fb67b04; sb:cb400; wu:fb67b04
Summary: Enables transcription cis-regulatory region binding activity. Involved in BMP signaling pathway and embryonic pattern specification. Acts upstream of or within several processes, including determination of ventral identity; embryonic morphogenesis; and vasculature development. Predicted to be located in cytoplasm and nucleus. Predicted to be part of heteromeric SMAD protein complex. Is expressed in eye; margin; and posterior lateral line primordium. Orthologous to human SMAD5 (SMAD family member 5). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 14

Exon count:: 8

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	14	NC_007125.7 (26467200..26498207, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	14	NC_007125.6 (26169095..26200196, complement)

Chromosome 14 - NC_007125.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Expression

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Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
BioProject: PRJEB1986
Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

TGFbeta1a regulates zebrafish posterior lateral line formation via Smad5 mediated pathway.
Title: TGFβ1a regulates zebrafish posterior lateral line formation via Smad5 mediated pathway.
Alk3 and Alk3b, as well as SMAD5, are essential cellular mediators of BMP signaling in zebrfish.
Title: Alk3/Alk3b and Smad5 mediate BMP signaling during lymphatic development in zebrafish.
Data show that interplay of Smad1/5 and MAP kinase signaling system (ERK signalling) is essential for haemogenic endothelium-based haematopoietic stem cell emergence.
Title: Inhibition of endothelial ERK signalling by Smad1/5 is essential for haematopoietic stem cell emergence.
this study uncovers that smad1 and smad9 act redundantly to each other downstream of smad5 to mediate ventral specification and to regulate embryonic myelopoiesis.
Title: Transcriptional factors smad1 and smad9 act redundantly to mediate zebrafish ventral specification downstream of smad5.
Functional investigation of a subset of these genes, fgf10a, tgfb2, pax9, and smad5 revealed their necessity in zebrafish palatogenesis.
Title: Examination of a palatogenic gene program in zebrafish.
Data show that Smad5 expression is ubiquitous during testis development but becomes cell-specific in the adult.
Title: SMAD expression in the testis: an insight into BMP regulation of spermatogenesis.
that specificity of BMP signaling output, with respect to hematopoiesis, can be explained by differential functions of Smad1 and Smad5.
Title: Smad1 and Smad5 differentially regulate embryonic hematopoiesis.
Data show that patterning of the eye primordia in Smad5-deficient embryos starts during blastula and early gastrula stages.
Title: Loss of maternal Smad5 in zebrafish embryos affects patterning and morphogenesis of optic primordia.
maternally supplied Smad5 is already required to mediate ventral specification prior to zygotic Bmp2/7 signaling to establish the initial dorsoventral asymmetry
Title: Maternally supplied Smad5 is required for ventral specification in zebrafish embryos prior to zygotic Bmp signaling.

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General gene information

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Markers

SMAD5 (e-PCR)
- UniSTS:205378

fb67b04 (e-PCR)
- UniSTS:189070

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IBA Inferred from Biological aspect of Ancestor more info
enables I-SMAD binding	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables transcription cis-regulatory region binding	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
involved_in BMP signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in BMP signaling pathway	IGI Inferred from Genetic Interaction more info
acts_upstream_of_or_within BMP signaling pathway	IMP Inferred from Mutant Phenotype more info
involved_in BMP signaling pathway	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in SMAD protein signal transduction	IBA Inferred from Biological aspect of Ancestor more info
involved_in anatomical structure morphogenesis	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within blood vessel morphogenesis	IGI Inferred from Genetic Interaction more info	PubMed
involved_in cell differentiation	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within determination of dorsal/ventral asymmetry	IGI Inferred from Genetic Interaction more info
acts_upstream_of_or_within determination of left/right symmetry	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within determination of ventral identity	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within determination of ventral identity	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within determination of ventral identity	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within dorsal convergence	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within dorsal/ventral pattern formation	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within dorsal/ventral pattern formation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within embryonic heart tube morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within embryonic pattern specification	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in embryonic pattern specification	IMP Inferred from Mutant Phenotype more info
acts_upstream_of_or_within heart looping	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within lymph vessel development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within otic placode formation	IEP Inferred from Expression Pattern more info
acts_upstream_of_or_within pharyngeal system development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within positive regulation of DNA-templated transcription	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within post-anal tail morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within posterior lateral line neuromast deposition	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within posterior lateral line neuromast development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of regeneration	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulation of BMP signaling pathway	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within roof of mouth development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in transforming growth factor beta receptor signaling pathway	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
part_of heteromeric SMAD protein complex	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
part_of transcription regulator complex	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: mothers against decapentaplegic homolog 5

Names: MAD homolog 5; SMA- and MAD-related protein 5; SMAD 5; mothers against DPP homolog 5; piggytail; somitabun

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_001346309.1 → NP_001333238.1 mothers against decapentaplegic homolog 5

Status: VALIDATED

Source sequence(s)

BX323077

UniProtKB/Swiss-Prot

Q9W7E7

UniProtKB/TrEMBL

A5PMC0

Related

ENSDARP00000155132.1, ENSDART00000183347.1
NM_131368.3 → NP_571443.3 mothers against decapentaplegic homolog 5

Status: VALIDATED

Source sequence(s)

BX323077, DT073830, EH543363, EH564501

UniProtKB/Swiss-Prot

Q9W7E7

UniProtKB/TrEMBL

A5PMC0

Related

ENSDARP00000054174.4, ENSDART00000054175.6

RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCz11 Primary Assembly

Genomic

NC_007125.7 Reference GRCz11 Primary Assembly

Range

26467200..26498207 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_005173164.4 → XP_005173221.1 mothers against decapentaplegic homolog 5 isoform X1

See identical proteins and their annotated locations for XP_005173221.1

UniProtKB/Swiss-Prot

Q9W7E7

UniProtKB/TrEMBL

A5PMC0

Related

ENSDARP00000154529.1, ENSDART00000191143.1

Conserved Domains (2) summary

cd10490
Location:10 → 133

MH1_SMAD_1_5_9; N-terminal Mad Homology 1 (MH1) domain in SMAD1, SMAD5 and SMAD9 (also known as SMAD8)

cd10497
Location:264 → 464

MH2_SMAD_1_5_9; C-terminal Mad Homology 2 (MH2) domain in SMAD1, SMAD5 and SMAD9