Basic Information
Gene Structure
Domain
Regulation&
Interaction
Annotation
Orthologus Group
Expresssion
Pathway
Basic Information
Gene ID
PH02Gene43834
View in Genome Browser
Position
hic_scaffold_21:60899485-60904157 (+)
4672bp
Gene Type
gene
Gene Description (Protein Product)
RNSP1-SAP18 binding (RSB) motif
Organism
Phyllostachys edulis
Also AS AT4G39680

Gene Structure

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Domain
Database EntryID E-Value Start end InterPro ID Description

Regulation&Interaction
Protein-protein interaction (PPI)
PH02Gene47449 RNSP1-SAP18 binding (RSB) motif
PH02Gene47288 cwf18 pre-mRNA splicing factor
PH02Gene47425 Vitamin B6 photo-protection and homoeostasis
Regulatory gene
PH02Gene00239 zinc finger
PH02Gene00304 Dof domain, zinc finger
PH02Gene00552 Zinc-finger double-stranded RNA-binding

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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:0002262 myeloid cell homeostasis BP
GO:0002376 immune system process BP
GO:0002520 immune system development BP
GO:0002682 regulation of immune system process BP
GO:0002684 positive regulation of immune system process BP
GO:0002761 regulation of myeloid leukocyte differentiation BP
GO:0002763 positive regulation of myeloid leukocyte differentiation BP
GO:0005575 cellular_component CC
GO:0005622 intracellular anatomical structure CC
GO:0005623 obsolete cell CC
GO:0005634 nucleus CC
GO:0005654 nucleoplasm CC
GO:0005730 nucleolus CC
GO:0005737 cytoplasm CC
GO:0005829 cytosol CC
GO:0005886 plasma membrane CC
GO:0006323 chromosome organization BP
GO:0006915 apoptotic process BP
GO:0006921 cellular component disassembly involved in execution phase of apoptosis BP
GO:0006996 organelle organization BP
GO:0007275 multicellular organism development BP
GO:0008150 biological_process BP
GO:0008219 cell death BP
GO:0009892 negative regulation of metabolic process BP
GO:0009987 cellular process BP
GO:0010468 regulation of gene expression BP
GO:0010605 negative regulation of macromolecule metabolic process BP
GO:0010629 negative regulation of gene expression BP
GO:0010941 regulation of cell death BP
GO:0010942 positive regulation of cell death BP
GO:0012501 programmed cell death BP
GO:0016020 membrane CC
GO:0016043 cellular component organization BP
GO:0016604 nuclear body CC
GO:0016607 nuclear speck CC
GO:0019219 regulation of nucleobase-containing compound metabolic process BP
GO:0019222 regulation of metabolic process BP
GO:0022411 cellular component disassembly BP
GO:0030097 hemopoiesis BP
GO:0030099 myeloid cell differentiation BP
GO:0030154 cell differentiation BP
GO:0030218 erythrocyte differentiation BP
GO:0030261 chromosome condensation BP
GO:0030262 apoptotic nuclear changes BP
GO:0030263 apoptotic chromosome condensation BP
GO:0031323 regulation of cellular metabolic process BP
GO:0031324 negative regulation of cellular metabolic process BP
GO:0031974 membrane-enclosed lumen CC
GO:0031981 nuclear lumen CC
GO:0032501 multicellular organismal process BP
GO:0032502 developmental process BP
GO:0032991 protein-containing complex CC
GO:0033119 negative regulation of RNA splicing BP
GO:0034101 erythrocyte homeostasis BP
GO:0042592 homeostatic process BP
GO:0042981 regulation of apoptotic process BP
GO:0043065 positive regulation of apoptotic process BP
GO:0043067 regulation of programmed cell death BP
GO:0043068 positive regulation of programmed cell death BP
GO:0043226 organelle CC
GO:0043227 membrane-bounded organelle CC
GO:0043228 non-membrane-bounded organelle CC
GO:0043229 intracellular organelle CC
GO:0043231 intracellular membrane-bounded organelle CC
GO:0043232 intracellular non-membrane-bounded organelle CC
GO:0043233 organelle lumen CC
GO:0043484 regulation of RNA splicing BP
GO:0044422 obsolete organelle part CC
GO:0044424 obsolete intracellular part CC
GO:0044428 obsolete nuclear part CC
GO:0044444 obsolete cytoplasmic part CC
GO:0044446 obsolete intracellular organelle part CC
GO:0044451 obsolete nucleoplasm part CC
GO:0044464 obsolete cell part CC
GO:0045595 regulation of cell differentiation BP
GO:0045597 positive regulation of cell differentiation BP
GO:0045637 regulation of myeloid cell differentiation BP
GO:0045639 positive regulation of myeloid cell differentiation BP
GO:0045655 regulation of monocyte differentiation BP
GO:0045657 positive regulation of monocyte differentiation BP
GO:0045934 negative regulation of nucleobase-containing compound metabolic process BP
GO:0048024 regulation of mRNA splicing, via spliceosome BP
GO:0048025 negative regulation of mRNA splicing, via spliceosome BP
GO:0048513 animal organ development BP
GO:0048518 positive regulation of biological process BP
GO:0048519 negative regulation of biological process BP
GO:0048522 positive regulation of cellular process BP
GO:0048523 negative regulation of cellular process BP
GO:0048534 hematopoietic or lymphoid organ development BP
GO:0048731 system development BP
GO:0048856 anatomical structure development BP
GO:0048869 cellular developmental process BP
GO:0048872 homeostasis of number of cells BP
GO:0050684 regulation of mRNA processing BP
GO:0050686 negative regulation of mRNA processing BP
GO:0050789 regulation of biological process BP
GO:0050793 regulation of developmental process BP
GO:0050794 regulation of cellular process BP
GO:0051094 positive regulation of developmental process BP
GO:0051171 regulation of nitrogen compound metabolic process BP
GO:0051172 negative regulation of nitrogen compound metabolic process BP
GO:0051239 regulation of multicellular organismal process BP
GO:0051240 positive regulation of multicellular organismal process BP
GO:0051252 regulation of RNA metabolic process BP
GO:0051253 negative regulation of RNA metabolic process BP
GO:0051276 chromosome organization BP
GO:0060255 regulation of macromolecule metabolic process BP
GO:0061574 ASAP complex CC
GO:0065007 biological regulation BP
GO:0065008 regulation of biological quality BP
GO:0070013 intracellular organelle lumen CC
GO:0071103 DNA conformation change BP
GO:0071840 cellular component organization or biogenesis BP
GO:0071944 cell periphery CC
GO:0080090 regulation of primary metabolic process BP
GO:0097194 execution phase of apoptosis BP
GO:1902105 regulation of leukocyte differentiation BP
GO:1902107 positive regulation of leukocyte differentiation BP
GO:1903311 regulation of mRNA metabolic process BP
GO:1903312 negative regulation of mRNA metabolic process BP
GO:1903706 regulation of hemopoiesis BP
GO:1903708 positive regulation of hemopoiesis BP
GO:2000026 regulation of multicellular organismal development BP
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.
map03015 mRNA surveillance pathway The mRNA surveillance pathway is a quality control mechanism that detects and degrades abnormal mRNAs. These pathways include nonsense-mediated mRNA decay (NMD), nonstop mRNA decay (NSD), and no-go decay (NGD). NMD is a mechanism that eliminates mRNAs containing premature translation-termination codons (PTCs). In vertebrates, PTCs trigger efficient NMD when located upstream of an exon junction complex (EJC). Upf3, together with Upf1 and Upf2, may signal the presence of the PTC to the 5'end of the transcript, resulting in decapping and rapid exonucleolytic digestion of the mRNA. In the NSD pathway, which targets mRNAs lacking termination codons, the ribosome is believed to translate through the 3' untranslated region and stall at the end of the poly(A) tail. NSD involves an eRF3-like protein, Ski7p, which is hypothesized to bind the empty A site of the ribosome and recruit the exosome to degrade the mRNA from the 3' end. NGD targets mRNAs with stalls in translation elongation for endonucleolytic cleavage in a process involving the Dom34 and Hbs1 proteins.
map03013 RNA transport RNA transport from the nucleus to the cytoplasm is fundamental for gene expression. The different RNA species that are produced in the nucleus are exported through the nuclear pore complexes (NPCs) via mobile export receptors. The majority of RNAs, such as tRNAs, rRNAs, and U snRNAs, are transported by specific export receptors, which belong to the karyopherin-beta family proteins. A feature of karyopherins is their regulation by the small GTPase Ran. However, general mRNA export is mechanistically different. Nuclear export of mRNAs is functionally coupled to different steps in gene expression processes, such as transcription, splicing, 3'-end formation and even translation.