Basic Information
Gene Structure
Domain
Regulation&
Interaction
Annotation
Orthologus Group
Expresssion
Pathway
Basic Information
Gene ID
PITA_39527.g
View in Genome Browser
Position
scaffold222892:64451-77578 (+)
13127bp
Gene Type
gene
Gene Description (Protein Product)
pre-mRNA-processing-splicing factor
Organism
Pinus taeda
Also AS AT1G80070

Gene Structure

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Domain
Database EntryID E-Value Start end InterPro ID Description

Regulation&Interaction
Protein-protein interaction (PPI)
PITA_50473.g SNW SKI-interacting protein-like
PITA_44107.g NHP2-like protein 1
PITA_41575.g splicing factor 3B subunit 2
Regulatory gene
PITA_00010.g Auxin response factors (ARFs) are transcriptional factors that bind specifically to the DNA sequence 5'-TGTCTC-3' found in the auxin-responsive promoter elements (AuxREs)
PITA_00088.g NAC domain-containing protein
PITA_00097.g NAC domain containing protein 28

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Annotation

Orthologous Group
Orthologous ID Species Number All hits in PereRegDB Hits of this species Orthologous Detail

Expression Profile
DataSet Number of Samples expressed(TPM>1) Mean Min Max Standard deviation(SD) Coeffcient variation(CV)


Pathway
Go Pathway KEGG Pathway
GO Term Description GO Category
GO:0000244 spliceosomal tri-snRNP complex assembly BP
GO:0000375 RNA splicing, via transesterification reactions BP
GO:0000377 RNA splicing, via transesterification reactions with bulged adenosine as nucleophile BP
GO:0000386 second spliceosomal transesterification activity MF
GO:0000387 spliceosomal snRNP assembly BP
GO:0000398 mRNA splicing, via spliceosome BP
GO:0002237 response to molecule of bacterial origin BP
GO:0003674 molecular_function MF
GO:0003676 nucleic acid binding MF
GO:0003723 RNA binding MF
GO:0003824 catalytic activity MF
GO:0005488 binding MF
GO:0005515 protein binding MF
GO:0005575 cellular_component CC
GO:0005622 intracellular anatomical structure CC
GO:0005623 obsolete cell CC
GO:0005634 nucleus CC
GO:0005681 spliceosomal complex CC
GO:0005682 U5 snRNP CC
GO:0005684 U2-type spliceosomal complex CC
GO:0006139 nucleobase-containing compound metabolic process BP
GO:0006396 RNA processing BP
GO:0006397 mRNA processing BP
GO:0006725 cellular aromatic compound metabolic process BP
GO:0006807 nitrogen compound metabolic process BP
GO:0008150 biological_process BP
GO:0008152 metabolic process BP
GO:0008380 RNA splicing BP
GO:0009605 response to external stimulus BP
GO:0009607 response to biotic stimulus BP
GO:0009617 response to bacterium BP
GO:0009987 cellular process BP
GO:0010033 response to organic substance BP
GO:0010467 gene expression BP
GO:0016043 cellular component organization BP
GO:0016070 RNA metabolic process BP
GO:0016071 mRNA metabolic process BP
GO:0017069 snRNA binding MF
GO:0017070 U6 snRNA binding MF
GO:0022607 cellular component assembly BP
GO:0022613 ribonucleoprotein complex biogenesis BP
GO:0022618 ribonucleoprotein complex assembly BP
GO:0030532 small nuclear ribonucleoprotein complex CC
GO:0030619 U1 snRNA binding MF
GO:0030620 U2 snRNA binding MF
GO:0030623 U5 snRNA binding MF
GO:0031593 polyubiquitin modification-dependent protein binding MF
GO:0032496 response to lipopolysaccharide BP
GO:0032991 protein-containing complex CC
GO:0033993 response to lipid BP
GO:0034097 response to cytokine BP
GO:0034612 response to tumor necrosis factor BP
GO:0034622 protein-containing complex assembly BP
GO:0034641 cellular nitrogen compound metabolic process BP
GO:0036002 pre-mRNA binding MF
GO:0042221 response to chemical BP
GO:0043170 macromolecule metabolic process BP
GO:0043207 response to external biotic stimulus BP
GO:0043226 organelle CC
GO:0043227 membrane-bounded organelle CC
GO:0043229 intracellular organelle CC
GO:0043231 intracellular membrane-bounded organelle CC
GO:0043933 protein-containing complex organization BP
GO:0044085 cellular component biogenesis BP
GO:0044237 cellular metabolic process BP
GO:0044238 primary metabolic process BP
GO:0044422 obsolete organelle part CC
GO:0044424 obsolete intracellular part CC
GO:0044428 obsolete nuclear part CC
GO:0044446 obsolete intracellular organelle part CC
GO:0044464 obsolete cell part CC
GO:0046483 heterocycle metabolic process BP
GO:0046540 U4/U6 x U5 tri-snRNP complex CC
GO:0050896 response to stimulus BP
GO:0051704 obsolete multi-organism process BP
GO:0051707 response to other organism BP
GO:0051716 cellular response to stimulus BP
GO:0065003 protein-containing complex assembly BP
GO:0070530 K63-linked polyubiquitin modification-dependent protein binding MF
GO:0070887 cellular response to chemical stimulus BP
GO:0071005 U2-type precatalytic spliceosome CC
GO:0071007 U2-type catalytic step 2 spliceosome CC
GO:0071011 precatalytic spliceosome CC
GO:0071013 catalytic step 2 spliceosome CC
GO:0071216 cellular response to biotic stimulus BP
GO:0071219 cellular response to molecule of bacterial origin BP
GO:0071222 cellular response to lipopolysaccharide BP
GO:0071310 cellular response to organic substance BP
GO:0071345 cellular response to cytokine stimulus BP
GO:0071356 cellular response to tumor necrosis factor BP
GO:0071396 cellular response to lipid BP
GO:0071704 organic substance metabolic process BP
GO:0071826 ribonucleoprotein complex subunit organization BP
GO:0071840 cellular component organization or biogenesis BP
GO:0090304 nucleic acid metabolic process BP
GO:0097157 pre-mRNA intronic binding MF
GO:0097159 organic cyclic compound binding MF
GO:0097525 spliceosomal snRNP complex CC
GO:0097526 spliceosomal tri-snRNP complex CC
GO:0120114 Sm-like protein family complex CC
GO:0140030 modification-dependent protein binding MF
GO:0140098 catalytic activity, acting on RNA MF
GO:1901360 organic cyclic compound metabolic process BP
GO:1901363 heterocyclic compound binding MF
GO:1901700 response to oxygen-containing compound BP
GO:1901701 cellular response to oxygen-containing compound BP
GO:1902494 catalytic complex CC
GO:1990904 ribonucleoprotein complex CC
KEGG Term Name Description
map03040 Spliceosome After transcription, eukaryotic mRNA precursors contain protein-coding exons and noncoding introns. In the following splicing, introns are excised and exons are joined by a macromolecular complex, the spliceosome. The standard spliceosome is made up of five small nuclear ribonucleoproteins (snRNPs), U1, U2, U4, U5, and U6 snRNPs, and several spliceosome-associated proteins (SAPs). Spliceosomes are not a simple stable complex, but a dynamic family of particles that assemble on the mRNA precursor and help fold it into a conformation that allows transesterification to proceed. Various spliceosome forms (e.g. A-, B- and C-complexes) have been identified.