RBPWorld - a comprehensive database of RNA Binding Proteins

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Description

Ensembl ID	AT1G54440	Gene ID	841886	Accession	-
Symbol	AT1G54440	Alias	-	Full Name	Polynucleotidyl transferase, ribonuclease H fold protein with HRDC domain-containing protein
Status	Confidence	Length	5275 bases	Strand	Plus strand
Position	1 : 20322964 - 20328238	RNA binding domain	DNA_pol_A_exo1 , HRDC
Summary	N.A.

RNA binding domains (RBDs)

Protein	Domain	Pfam ID	E-value	Domain number
AT1G54440	HRDC	PF00570	1.3e-11	1
AT1G54440	HRDC	PF00570	1.7e-11	2
AT1G54440	HRDC	PF00570	1.8e-11	3
AT1G54440	HRDC	PF00570	2e-11	4
AT1G54440	HRDC	PF00570	2e-11	5
AT1G54440	DNA_pol_A_exo1	PF01612	5.6e-44	6
AT1G54440	DNA_pol_A_exo1	PF01612	8e-44	7
AT1G54440	DNA_pol_A_exo1	PF01612	8e-44	8
AT1G54440	DNA_pol_A_exo1	PF01612	9.2e-44	9
AT1G54440	DNA_pol_A_exo1	PF01612	9.3e-44	10

RNA binding proteomes (RBPomes)

Pubmed ID	Full Name	Cell	Author	Time	Doi

Literatures on RNA binding capacity

Pubmed ID	Title	Author	Time	Journal

Transcripts

Name	Transcript ID	bp	Protein	Translation ID
AT1G54440-204	AT1G54440	2246	639aa	AT1G54440

Gene Model

Click here to download AT1G54440's gene model file

Pathways

Pathway ID	Pathway Name	Source

Phenotypes

ensgID	Trait	pValue	Pubmed ID

GWAS

ensgID	SNP	Chromosome	Position	Trait	PubmedID	Or or BEAT	EFO ID

Protein-Protein Interaction (PPI)

Click here to download AT1G54440's PPI file

Paralogs

Ensembl ID	Source				Target
Ensembl ID	Species	Protein ID	Perc_pos	Perc_id	Species	Protein ID	Perc_pos	Perc_id
AT1G54440

Orthologs

Ensembl ID	Source				Target
Ensembl ID	Species	Protein ID	Perc_pos	Perc_id	Species	Protein ID	Perc_pos	Perc_id
AT1G54440

Gene Ontology

Go ID	Go term	No. evidence	Entries	Species	Category
GO:0000166	enables nucleotide binding	1	IEA	Arabidopsis_thaliana(3702)	Function
GO:0000175	enables 3-5-RNA exonuclease activity	2	IEA,IMP	Arabidopsis_thaliana(3702)	Function
GO:0000467	involved_in exonucleolytic trimming to generate mature 3-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	1	IEA	Arabidopsis_thaliana(3702)	Process
GO:0003676	enables nucleic acid binding	1	IEA	Arabidopsis_thaliana(3702)	Function
GO:0003727	enables single-stranded RNA binding	1	IDA	Arabidopsis_thaliana(3702)	Function
GO:0005634	located_in nucleus	2	IDA,ISM	Arabidopsis_thaliana(3702)	Component
GO:0005654	located_in nucleoplasm	1	IDA	Arabidopsis_thaliana(3702)	Component
GO:0005730	located_in nucleolus	1	IDA	Arabidopsis_thaliana(3702)	Component
GO:0006346	acts_upstream_of_or_within DNA methylation-dependent heterochromatin formation	1	IMP	Arabidopsis_thaliana(3702)	Process
GO:0044030	acts_upstream_of_or_within regulation of DNA methylation	1	IMP	Arabidopsis_thaliana(3702)	Process
GO:0080188	acts_upstream_of_or_within gene silencing by RNA-directed DNA methylation	2	IMP	Arabidopsis_thaliana(3702)	Process
GO:1903705	acts_upstream_of_or_within positive regulation of siRNA processing	1	IMP	Arabidopsis_thaliana(3702)	Process
GO:1904281	acts_upstream_of_or_within positive regulation of transcription by RNA polymerase V	1	IMP	Arabidopsis_thaliana(3702)	Process
GO:1990280	acts_upstream_of_or_within RNA localization to chromatin	1	IMP	Arabidopsis_thaliana(3702)	Process

Expression