Basic Information
Gene Structure
Domain
Regulation&
Interaction
Annotation
Orthologus Group
Pathway
Basic Information
Gene ID
Ciclev10033668m.g.v1.0
View in Genome Browser
Position
scaffold_4:5512302-5513656 (-)
1354bp
Gene Type
gene
Gene Description (Protein Product)
generation of catalytic spliceosome for first transesterification step
Organism
Citrus clementina
Also AS AT1G04510CICLE_v10033668mg

Gene Structure

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Domain
Database EntryID E-Value Start end InterPro ID Description

Regulation&Interaction
Protein-protein interaction (PPI)
Ciclev10033681m.g.v1.0 DEAD-box ATP-dependent RNA helicase
Ciclev10033685m.g.v1.0 Crooked neck-like protein 1
Ciclev10033885m.g.v1.0 ATP-dependent RNA helicase
Regulatory gene
Ciclev10000850m.g.v1.0 Protein SENSITIVE TO PROTON RHIZOTOXICITY
Ciclev10000982m.g.v1.0 zinc finger protein
Ciclev10001017m.g.v1.0 Zinc finger protein

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Annotation

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


Pathway
Go Pathway KEGG Pathway
GO Term Description GO Category
GO:0000075 cell cycle checkpoint signaling BP
GO:0000077 DNA damage checkpoint signaling BP
GO:0000151 ubiquitin ligase complex CC
GO:0000209 protein polyubiquitination BP
GO:0000244 spliceosomal tri-snRNP complex assembly BP
GO:0000245 spliceosomal complex assembly BP
GO:0000349 generation of catalytic spliceosome for first transesterification step BP
GO:0000375 RNA splicing, via transesterification reactions BP
GO:0000377 RNA splicing, via transesterification reactions with bulged adenosine as nucleophile BP
GO:0000381 regulation of alternative mRNA splicing, via spliceosome BP
GO:0000387 spliceosomal snRNP assembly BP
GO:0000393 spliceosomal conformational changes to generate catalytic conformation BP
GO:0000398 mRNA splicing, via spliceosome BP
GO:0000726 obsolete non-recombinational repair BP
GO:0000974 Prp19 complex CC
GO:0001701 in utero embryonic development BP
GO:0001824 blastocyst development BP
GO:0001832 blastocyst growth BP
GO:0001833 inner cell mass cell proliferation BP
GO:0003674 molecular_function MF
GO:0003824 catalytic activity MF
GO:0004842 ubiquitin-protein transferase activity MF
GO:0005488 binding MF
GO:0005515 protein binding MF
GO:0005575 cellular_component CC
GO:0005618 cell wall CC
GO:0005622 intracellular anatomical structure CC
GO:0005623 obsolete cell CC
GO:0005634 nucleus CC
GO:0005654 nucleoplasm CC
GO:0005681 spliceosomal complex CC
GO:0005684 U2-type spliceosomal complex CC
GO:0005694 chromosome CC
GO:0005730 nucleolus CC
GO:0005737 cytoplasm CC
GO:0005811 lipid droplet CC
GO:0005829 cytosol CC
GO:0006139 nucleobase-containing compound metabolic process BP
GO:0006259 DNA metabolic process BP
GO:0006281 DNA repair BP
GO:0006283 transcription-coupled nucleotide-excision repair BP
GO:0006289 nucleotide-excision repair BP
GO:0006302 double-strand break repair BP
GO:0006303 double-strand break repair via nonhomologous end joining BP
GO:0006325 chromatin organization BP
GO:0006396 RNA processing BP
GO:0006397 mRNA processing BP
GO:0006464 protein modification process BP
GO:0006508 proteolysis BP
GO:0006629 lipid metabolic process BP
GO:0006725 cellular aromatic compound metabolic process BP
GO:0006807 nitrogen compound metabolic process BP
GO:0006950 response to stress BP
GO:0006952 defense response BP
GO:0006974 cellular response to DNA damage stimulus BP
GO:0006996 organelle organization BP
GO:0007154 cell communication BP
GO:0007165 signal transduction BP
GO:0007275 multicellular organism development BP
GO:0007399 nervous system development BP
GO:0008104 protein localization BP
GO:0008150 biological_process BP
GO:0008152 metabolic process BP
GO:0008283 cell population proliferation BP
GO:0008380 RNA splicing BP
GO:0008610 lipid biosynthetic process BP
GO:0009056 catabolic process BP
GO:0009057 macromolecule catabolic process BP
GO:0009058 biosynthetic process BP
GO:0009507 chloroplast CC
GO:0009536 plastid CC
GO:0009605 response to external stimulus BP
GO:0009607 response to biotic stimulus BP
GO:0009617 response to bacterium BP
GO:0009790 embryo development BP
GO:0009792 embryo development ending in birth or egg hatching BP
GO:0009893 positive regulation of metabolic process BP
GO:0009987 cellular process BP
GO:0010035 response to inorganic substance BP
GO:0010038 response to metal ion BP
GO:0010467 gene expression BP
GO:0010468 regulation of gene expression BP
GO:0010498 proteasomal protein catabolic process BP
GO:0010604 positive regulation of macromolecule metabolic process BP
GO:0010628 positive regulation of gene expression BP
GO:0010720 positive regulation of cell development BP
GO:0010721 negative regulation of cell development BP
GO:0014013 regulation of gliogenesis BP
GO:0014015 positive regulation of gliogenesis BP
GO:0016043 cellular component organization BP
GO:0016070 RNA metabolic process BP
GO:0016071 mRNA metabolic process BP
GO:0016567 protein ubiquitination BP
GO:0016604 nuclear body CC
GO:0016607 nuclear speck CC
GO:0016740 transferase activity MF
GO:0019219 regulation of nucleobase-containing compound metabolic process BP
GO:0019222 regulation of metabolic process BP
GO:0019538 protein metabolic process BP
GO:0019787 ubiquitin-like protein transferase activity MF
GO:0022008 neurogenesis BP
GO:0022607 cellular component assembly BP
GO:0022613 ribonucleoprotein complex biogenesis BP
GO:0022618 ribonucleoprotein complex assembly BP
GO:0023052 signaling BP
GO:0030154 cell differentiation BP
GO:0030163 protein catabolic process BP
GO:0030312 external encapsulating structure CC
GO:0031323 regulation of cellular metabolic process BP
GO:0031325 positive regulation of cellular metabolic process BP
GO:0031461 cullin-RING ubiquitin ligase complex CC
GO:0031570 DNA integrity checkpoint signaling BP
GO:0031974 membrane-enclosed lumen CC
GO:0031981 nuclear lumen CC
GO:0032446 protein modification by small protein conjugation BP
GO:0032501 multicellular organismal process BP
GO:0032502 developmental process BP
GO:0032991 protein-containing complex CC
GO:0033036 macromolecule localization BP
GO:0033120 positive regulation of RNA splicing BP
GO:0033554 cellular response to stress BP
GO:0034450 ubiquitin-ubiquitin ligase activity MF
GO:0034613 protein localization BP
GO:0034622 protein-containing complex assembly BP
GO:0034641 cellular nitrogen compound metabolic process BP
GO:0035556 intracellular signal transduction BP
GO:0035861 site of double-strand break CC
GO:0036211 protein modification process BP
GO:0040007 growth BP
GO:0042221 response to chemical BP
GO:0042742 defense response to bacterium BP
GO:0042770 signal transduction in response to DNA damage BP
GO:0042802 identical protein binding MF
GO:0043009 chordate embryonic development 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: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:0043412 macromolecule modification BP
GO:0043484 regulation of RNA splicing BP
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:0044248 cellular catabolic process BP
GO:0044257 protein catabolic process BP
GO:0044260 cellular macromolecule metabolic process BP
GO:0044265 cellular macromolecule catabolic process BP
GO:0044267 protein metabolic process BP
GO:0044422 obsolete organelle part CC
GO:0044424 obsolete intracellular part CC
GO:0044427 obsolete chromosomal 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:0045596 negative regulation of cell differentiation BP
GO:0045597 positive regulation of cell differentiation BP
GO:0045664 regulation of neuron differentiation BP
GO:0045665 negative regulation of neuron differentiation BP
GO:0045666 positive regulation of neuron differentiation BP
GO:0045685 regulation of glial cell differentiation BP
GO:0045687 positive regulation of glial cell differentiation BP
GO:0045786 negative regulation of cell cycle BP
GO:0045935 positive regulation of nucleobase-containing compound metabolic process BP
GO:0046483 heterocycle metabolic process BP
GO:0046686 response to cadmium ion BP
GO:0048024 regulation of mRNA splicing, via spliceosome BP
GO:0048026 positive regulation of mRNA splicing, via spliceosome 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:0048589 developmental growth BP
GO:0048699 generation of neurons BP
GO:0048710 regulation of astrocyte differentiation BP
GO:0048711 positive regulation of astrocyte differentiation BP
GO:0048731 system development BP
GO:0048856 anatomical structure development BP
GO:0048869 cellular developmental process BP
GO:0050684 regulation of mRNA processing BP
GO:0050685 positive regulation of mRNA processing BP
GO:0050767 regulation of neurogenesis BP
GO:0050768 negative regulation of neurogenesis BP
GO:0050769 positive regulation of neurogenesis BP
GO:0050789 regulation of biological process BP
GO:0050793 regulation of developmental process BP
GO:0050794 regulation of cellular process BP
GO:0050896 response to stimulus BP
GO:0051093 negative regulation of developmental process BP
GO:0051094 positive regulation of developmental process BP
GO:0051171 regulation of nitrogen compound metabolic process BP
GO:0051173 positive regulation of nitrogen compound metabolic process BP
GO:0051179 localization BP
GO:0051239 regulation of multicellular organismal process BP
GO:0051240 positive regulation of multicellular organismal process BP
GO:0051241 negative regulation of multicellular organismal process BP
GO:0051252 regulation of RNA metabolic process BP
GO:0051254 positive regulation of RNA metabolic process BP
GO:0051276 chromosome organization BP
GO:0051603 proteolysis involved in protein catabolic process BP
GO:0051641 cellular localization BP
GO:0051704 obsolete multi-organism process BP
GO:0051707 response to other organism BP
GO:0051716 cellular response to stimulus BP
GO:0051726 regulation of cell cycle BP
GO:0051960 regulation of nervous system development BP
GO:0051961 negative regulation of nervous system development BP
GO:0051962 positive regulation of nervous system development BP
GO:0060255 regulation of macromolecule metabolic process BP
GO:0060284 regulation of cell development BP
GO:0061630 ubiquitin protein ligase activity MF
GO:0061659 ubiquitin-like protein ligase activity MF
GO:0065003 protein-containing complex assembly BP
GO:0065007 biological regulation BP
GO:0070013 intracellular organelle lumen CC
GO:0070534 protein K63-linked ubiquitination BP
GO:0070647 protein modification by small protein conjugation or removal BP
GO:0070727 cellular macromolecule localization BP
GO:0071006 U2-type catalytic step 1 spliceosome CC
GO:0071007 U2-type catalytic step 2 spliceosome CC
GO:0071012 catalytic step 1 spliceosome CC
GO:0071013 catalytic step 2 spliceosome CC
GO:0071704 organic substance metabolic process BP
GO:0071826 ribonucleoprotein complex subunit organization BP
GO:0071840 cellular component organization or biogenesis BP
GO:0071944 cell periphery CC
GO:0072395 cell cycle checkpoint signaling BP
GO:0072401 DNA integrity checkpoint signaling BP
GO:0072422 DNA damage checkpoint signaling BP
GO:0080008 Cul4-RING E3 ubiquitin ligase complex CC
GO:0080090 regulation of primary metabolic process BP
GO:0090304 nucleic acid metabolic process BP
GO:0090734 site of DNA damage CC
GO:0098542 defense response to other organism BP
GO:0140096 catalytic activity, acting on a protein MF
GO:1901360 organic cyclic compound metabolic process BP
GO:1901564 organonitrogen compound metabolic process BP
GO:1901565 organonitrogen compound catabolic process BP
GO:1901575 organic substance catabolic process BP
GO:1901576 organic substance biosynthetic process BP
GO:1902494 catalytic complex CC
GO:1903311 regulation of mRNA metabolic process BP
GO:1903313 positive regulation of mRNA metabolic process BP
GO:1990234 transferase complex CC
GO:1990904 ribonucleoprotein complex CC
GO:2000026 regulation of multicellular organismal development BP
KEGG Term Name Description
map04120 Ubiquitin mediated proteolysis Protein ubiquitination plays an important role in eukaryotic cellular processes. It mainly functions as a signal for 26S proteasome dependent protein degradation. The addition of ubiquitin to proteins being degraded is performed by a reaction cascade consisting of three enzymes, named E1 (ubiquitin activating enzyme), E2 (ubiquitin conjugating enzyme), and E3 (ubiquitin ligase). Each E3 has specificity to its substrate, or proteins to be targeted by ubiquitination. Many E3s are discovered in eukaryotes and they are classified into four types: HECT type, U-box type, single RING-finger type, and multi-subunit RING-finger type. Multi-subunit RING-finger E3s are exemplified by cullin-Rbx E3s and APC/C. They consist of a RING-finger-containing subunit (RBX1 or RBX2) that functions to bind E2s, a scaffold-like cullin molecule, adaptor proteins, and a target recognizing subunit that binds substrates.
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.