TT16 K-box region and MADS-box transcription factor family protein [Arabidopsis thaliana (thale cress)] - Gene

Summary

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Official Symbol: TT16
Official Full Name: K-box region and MADS-box transcription factor family protein
Primary source: TAIR:AT5G23260
Locus tag: AT5G23260
See related: Araport:AT5G23260
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Arabidopsis thaliana (ecotype: Columbia)
Lineage: Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Also known as: ABS; AGAMOUS-like 32; AGL32; ARABIDOPSIS BSISTER; MKD15.12; MKD15_12; TRANSPARENT TESTA16
Summary: Encodes a MADS box protein. Regulates proanthocyanidin biosynthesis in the inner-most cell layer of the seed coat. Also controls cell shape of the inner-most cell layer of the seed coat. Also shown to be necessary for determining the identity of the endothelial layer within the ovule. Paralogous to GOA. Plays a maternal role in fertilization and seed development.
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Genomic context

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See TT16 in Genome Data Viewer

Location:: chromosome: 5

Exon count:: 7

Sequence:: Chromosome: 5; NC_003076.8 (7835965..7838555)

Chromosome 5 - NC_003076.8 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003076.8

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

the roles and mode of action of TT16 and TT15 during seed development and proanthocyanidin biosynthesis
Title: TRANSPARENT TESTA 16 and 15 act through different mechanisms to control proanthocyanidin accumulation in Arabidopsis testa.
Study suggests that ABS is not only required for the regulation of PA accumulation in the seed coat but positively regulates coordinated cell divisions in the inner integument layer of the ovule, nuclear endosperm proliferation, endothelium cell morphology, and influences on mucilage release of the seed coat epidermal cell layer.
Title: The MADS Box Genes ABS, SHP1, and SHP2 Are Essential for the Coordination of Cell Divisions in Ovule and Seed Coat Development and for Endosperm Formation in Arabidopsis thaliana.
STK and ABS played a role in the maternal control of endothelium formation, as the abs stk double mutant completely lacks endothelium.
Title: The MADS box genes SEEDSTICK and ARABIDOPSIS Bsister play a maternal role in fertilization and seed development.
No shared protein interaction partners for ABS and GOA could be identified.
Title: GORDITA (AGL63) is a young paralog of the Arabidopsis thaliana B(sister) MADS box gene ABS (TT16) that has undergone neofunctionalization.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Homology

Orthologs from OrthoDB

NM_001125792.1

Supported by ESTs:

NM_001343796.1

Supported by ESTs:

NM_203094.2

Supported by ESTs:

Gene Ontology Provided by TAIR

Function	Evidence Code	Pubs
enables DNA-binding transcription factor activity	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription factor activity	IMP Inferred from Mutant Phenotype more info	PubMed
enables DNA-binding transcription factor activity	ISS Inferred from Sequence or Structural Similarity more info	PubMed
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein dimerization activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within integument development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within plant ovule development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within plant ovule development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulation of cell division	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within regulation of cell shape	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulation of double fertilization forming a zygote and endosperm	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within regulation of proanthocyanidin biosynthetic process	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within seed development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within seed development	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in nucleus	ISM Inferred from Sequence Model more info

General protein information

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Preferred Names: K-box region and MADS-box transcription factor family protein

NP_001119264.1

TRANSPARENT TESTA16 (TT16); FUNCTIONS IN: sequence-specific DNA binding transcription factor activity; INVOLVED IN: regulation of cell shape, regulation of proanthocyanidin biosynthetic process, seed development, ovule development; LOCATED IN: nucleus; EXPRESSED IN: 10 plant structures; EXPRESSED DURING: 4 anthesis, C globular stage, petal differentiation and expansion stage, E expanded cotyledon stage, D bilateral stage; CONTAINS InterPro DOMAIN/s: Transcription factor, MADS-box (InterPro:IPR002100), Transcription factor, K-box (InterPro:IPR002487); BEST Arabidopsis thaliana protein match is: AGAMOUS-like 15 (TAIR:AT5G13790.1); Has 30201 Blast hits to 17322 proteins in 780 species: Archae - 12; Bacteria - 1396; Metazoa - 17338; Fungi - 3422; Plants - 5037; Viruses - 0; Other Eukaryotes - 2996 (source: NCBI BLink).

NP_001318626.1

TRANSPARENT TESTA16 (TT16); FUNCTIONS IN: sequence-specific DNA binding transcription factor activity; INVOLVED IN: regulation of cell shape, regulation of proanthocyanidin biosynthetic process, seed development, ovule development; LOCATED IN: nucleus; EXPRESSED IN: 10 plant structures; EXPRESSED DURING: 4 anthesis, C globular stage, petal differentiation and expansion stage, E expanded cotyledon stage, D bilateral stage; CONTAINS InterPro DOMAIN/s: Transcription factor, MADS-box (InterPro:IPR002100), Transcription factor, K-box (InterPro:IPR002487); BEST Arabidopsis thaliana protein match is: AGAMOUS-like 21 (TAIR:AT4G37940.1); Has 35333 Blast hits to 34131 proteins in 2444 species: Archae - 798; Bacteria - 22429; Metazoa - 974; Fungi - 991; Plants - 531; Viruses - 0; Other Eukaryotes - 9610 (source: NCBI BLink).

NP_974823.1

TRANSPARENT TESTA16 (TT16); FUNCTIONS IN: sequence-specific DNA binding transcription factor activity; INVOLVED IN: regulation of cell shape, regulation of proanthocyanidin biosynthetic process, seed development, ovule development; LOCATED IN: nucleus; EXPRESSED IN: 10 plant structures; EXPRESSED DURING: 4 anthesis, C globular stage, petal differentiation and expansion stage, E expanded cotyledon stage, D bilateral stage; CONTAINS InterPro DOMAIN/s: Transcription factor, MADS-box (InterPro:IPR002100), Transcription factor, K-box (InterPro:IPR002487); BEST Arabidopsis thaliana protein match is: AGAMOUS-like 21 (TAIR:AT4G37940.1); Has 35333 Blast hits to 34131 proteins in 2444 species: Archae - 798; Bacteria - 22429; Metazoa - 974; Fungi - 991; Plants - 531; Viruses - 0; Other Eukaryotes - 9610 (source: NCBI BLink).

NCBI Reference Sequences (RefSeq)

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Genome Annotation

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

Reference assembly

Genomic

NC_003076.8 Reference assembly

Range

7835965..7838555

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001343797.1 → NP_001330404.1 K-box region and MADS-box transcription factor family protein [Arabidopsis thaliana]

Status: REVIEWED

UniProtKB/TrEMBL

A0A1P8BAR2, B2GVM9

Conserved Domains (2) summary

cd00265
Location:18 → 95

MADS_MEF2_like; MEF2 (myocyte enhancer factor 2)-like/Type II subfamily of MADS ( MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptional regulators. Binds DNA and exists as hetero and homo-dimers. Differs from SRF-like/Type I ...

pfam01486
Location:97 → 187

K-box; K-box region
NM_001343796.1 → NP_001318626.1 K-box region and MADS-box transcription factor family protein [Arabidopsis thaliana]

Status: REVIEWED

UniProtKB/TrEMBL

A0A2H1ZE61, B2GVM9

Conserved Domains (2) summary

cd00265
Location:18 → 95

MADS_MEF2_like; MEF2 (myocyte enhancer factor 2)-like/Type II subfamily of MADS ( MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptional regulators. Binds DNA and exists as hetero and homo-dimers. Differs from SRF-like/Type I ...

pfam01486
Location:97 → 182

K-box; K-box region
NM_203094.2 → NP_974823.1 K-box region and MADS-box transcription factor family protein [Arabidopsis thaliana]

See identical proteins and their annotated locations for NP_974823.1

Status: REVIEWED

UniProtKB/Swiss-Prot

Q540P5, Q8RYD9, Q9FMX4

UniProtKB/TrEMBL

A0A178UI66, A0A5S9Y724, B2GVM9

Conserved Domains (2) summary

cd00265
Location:2 → 79

MADS_MEF2_like; MEF2 (myocyte enhancer factor 2)-like/Type II subfamily of MADS ( MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptional regulators. Binds DNA and exists as hetero and homo-dimers. Differs from SRF-like/Type I ...

pfam01486
Location:81 → 171

K-box; K-box region
NM_001125792.1 → NP_001119264.1 K-box region and MADS-box transcription factor family protein [Arabidopsis thaliana]

See identical proteins and their annotated locations for NP_001119264.1

Status: REVIEWED

UniProtKB/TrEMBL

B2GVM9, F4KCU5

Conserved Domains (2) summary

cd00265
Location:2 → 79

MADS_MEF2_like; MEF2 (myocyte enhancer factor 2)-like/Type II subfamily of MADS ( MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptional regulators. Binds DNA and exists as hetero and homo-dimers. Differs from SRF-like/Type I ...

pfam01486
Location:82 → 155

K-box; K-box region