LOC4346464 histone-lysine N-methyltransferase TRX1-like [Oryza sativa Japonica Group (Japanese rice)] - Gene

Summary

Gene symbol: LOC4346464
Gene description: histone-lysine N-methyltransferase TRX1-like
Locus tag: OSNPB_090134500
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Oryza sativa Japonica Group
Lineage: Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; Liliopsida; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa
Also known as: SET; TRX1; OsTrx1; SDG723; OsSET33
Expression: Ubiquitous expression in roots after flowering (RPKM 13.9), leaves before flowering (RPKM 13.9) and 6 other tissues See more
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Genomic context

Location:: chromosome: 9

Exon count:: 26

Annotation release	Status	Assembly	Chr	Location
102	current	IRGSP-1.0 (GCF_001433935.1)	9	NC_029264.1 (2601643..2615958, complement)

Chromosome 9 - NC_029264.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_029264.1 Chromosome 9 Reference IRGSP-1.0 Primary Assembly

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Transcriptome profiling of various organs at different developmental stages in rice
Description: Transcriptom profiling in flower buds, flowers, flag leaves and roots sampled before flowering and after flowering, milk grains and mature seeds
BioProject: PRJNA243371
Publication: PMID 26387578
Analysis date: Fri Dec 15 20:02:59 2017

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

SIP1 interacts with Trx1, allowing Trx1 to specifically target Ehd1, altering H3K4me3 levels, increasing Ehd1 expression and thereby promoting flowering.
Title: SIP1 participates in regulation of flowering time in rice by recruiting OsTrx1 to Ehd1.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by RefSeq

Function	Evidence Code	Pubs
enables protein binding	IEA Inferred from Electronic Annotation more info	PubMed

Process	Evidence Code	Pubs
involved_in regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info	PubMed

Component	Evidence Code	Pubs
part_of chromatin	IEA Inferred from Electronic Annotation more info	PubMed
located_in nucleus	IEA Inferred from Electronic Annotation more info	PubMed

General protein information

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Preferred Names: histone-lysine N-methyltransferase TRX1

Names: Histone-lysine N-methyltransferase TRX1; LOC_Os09g04890; Os09g0134500; P0406E03.49-1; P0406E03.49-2; Protein SET DOMAIN GROUP 723; SET family protein 33; histone-lysine N-methyltransferase ATX2; trithorax 1 (ATX-1) (TRX1)-like; trithorax-like

XP_015612383.1

EC 2.1.1.364

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_001422703.1 → NP_001409632.1 histone-lysine N-methyltransferase TRX1

Status: VALIDATED

Source sequence(s)

AK074022, CI664220

UniProtKB/Swiss-Prot

Q6K430, Q6K431

UniProtKB/TrEMBL

B9G282

RefSeqs of Annotated Genomes: Oryza sativa Japonica Group Annotation Release 102 details...

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

Reference IRGSP-1.0 Primary Assembly

Genomic

NC_029264.1 Reference IRGSP-1.0 Primary Assembly

Range

2601643..2615958 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_015756897.2 → XP_015612383.1 histone-lysine N-methyltransferase TRX1

UniProtKB/Swiss-Prot

Q6K431

Conserved Domains (7) summary

cd15494
Location:567 → 612

PHD_ATX1_2_like; PHD finger found in Arabidopsis thaliana histone-lysine N-methyltransferase arabidopsis trithorax-like protein ATX1, ATX2, and similar proteins

cd15662
Location:623 → 743

ePHD_ATX1_2_like; Extended PHD finger found in Arabidopsis thaliana ATX1, -2, and similar proteins

cd10518
Location:848 → 997

SET_SETD1-like; SET domain (including post-SET domain) found in SET domain-containing proteins (SETD1A/SETD1B), histone-lysine N-methyltransferases (KMT2A/KMT2B/KMT2C/KMT2D) and similar proteins

pfam00855
Location:264 → 352

PWWP; PWWP domain

pfam05964
Location:408 → 458

FYRN; F/Y-rich N-terminus

pfam05965
Location:467 → 548

FYRC; F/Y rich C-terminus

cd20404
Location:172 → 222

Tudor_Agenet_AtEML-like; Tudor-like Agenet domain found in Arabidopsis thaliana proteins EMSY-LIKE 1-4 (AtEML1-4) and similar proteins