General information for g12065.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Protein CWC15-like protein.
Parent gene
- The parent gene g12065 is located on chr_1: 20704216..20705152 (- strand)
Gene structure
- The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.
| Chromosome | Gene | Transcript | Category | ID | Start | End |
|---|---|---|---|---|---|---|
| chr_1 | g12065 | g12065.t2 | isoform | g12065.t2 | 20703881 | 20704932 |
| chr_1 | g12065 | g12065.t2 | exon | g12065.t2.exon1 | 20703881 | 20704033 |
| chr_1 | g12065 | g12065.t2 | exon | g12065.t2.exon2 | 20704094 | 20704932 |
| chr_1 | g12065 | g12065.t2 | cds | g12065.t2.CDS1 | 20704216 | 20704776 |
| chr_1 | g12065 | g12065.t2 | TSS | g12065.t2 | 20705143 | 20705143 |
| chr_1 | g12065 | g12065.t2 | TTS | g12065.t2 | NA | NA |
Sequences
>g12065.t2 Gene=g12065 Length=992
ATGACGACTGCAGCACGTCCAACTTTTGATACAGCTAAAGGAGGATCTAATAGAGGAGAG
AAAGATCTTTCTGCATTATCCAAACAATATTCATCACGTGATTTGCCTTCACATACAAAA
CTAAAATACAGGTAAATTTAAAATTTGATTTACTGGATGTTTAATTACCATTTTGAAAAA
AAAATCATTTATAGAGAAACTGGACAAGGAACAAATGATGAAATTCGCAGTCGTGACCTC
CGTAAAGAATTAGAAGAGCGTGAAAGTTCAAGTAAAACATCAAAACAATCTGCAGTTGTT
CGTCGTGCACTCGAAGCTAACACAAAACGTCAAAAATTGGAACAAAACCCAGATGCAGAC
GATCCTGTTGAAAGCGATAATTCGGATGATTCTGATTCTGATGATGATGACACAGCAGCA
CTTCTTGCGGAATTAAACAAAATAAAAAATGAAAGAGCACAAGAGAATGCAAAGAAAGAA
GCAGAAAAGCAACAAGAAGAGGAACGAATACGCTTAGAGAATATTCTTAGTGGCAACCCG
CTCTTAAATTATTCTGCTGGTACATCAAAAGGAAATACTAAAGTGAAGAGACGTTGGAAT
GATGACGTAGTGTTTAAAAATTGTGCACGCACTGAAGTAGACAAAGGTGACACCTTCATT
AATGACTCATTGCGCTCGGAATTTCACAAAAAATTCATGGAAAAATATATTAAATAAAGC
TTAATCTTTTAAAAGCACTTGAATTTTCTTTTTTATTTAAAGTTCCAAACTCGAAAGATC
ACAGTTGAATTTATTTTCTGTATCATCATCATAAATTGTAAATGAATCGATGTCACGTTT
CCTTTTAAAGAAAAATCATCATCAAGAATTAGAGATGCATCATCAGTAGAATCACCTTCA
GTGATCATTATTAGACAAAAAAATAGAAAGATTTGAAAAATCGCAAATATTTTATTAAAC
ATATTTTATTAAATTGACAAGTACACATGTGT
>g12065.t2 Gene=g12065 Length=186
MFNYHFEKKIIYRETGQGTNDEIRSRDLRKELEERESSSKTSKQSAVVRRALEANTKRQK
LEQNPDADDPVESDNSDDSDSDDDDTAALLAELNKIKNERAQENAKKEAEKQQEEERIRL
ENILSGNPLLNYSAGTSKGNTKVKRRWNDDVVFKNCARTEVDKGDTFINDSLRSEFHKKF
MEKYIK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g12065.t2 | Coils | Coil | Coil | 86 | 119 | - |
| 4 | g12065.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 13 | 40 | - |
| 5 | g12065.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 13 | 88 | - |
| 6 | g12065.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 53 | 67 | - |
| 7 | g12065.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 68 | 87 | - |
| 2 | g12065.t2 | PANTHER | PTHR12718 | CELL CYCLE CONTROL PROTEIN CWF15 | 9 | 186 | 6.3E-54 |
| 3 | g12065.t2 | PANTHER | PTHR12718:SF2 | SPLICEOSOME-ASSOCIATED PROTEIN CWC15 HOMOLOG | 9 | 186 | 6.3E-54 |
| 1 | g12065.t2 | Pfam | PF04889 | Cwf15/Cwc15 cell cycle control protein | 57 | 186 | 1.7E-48 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0005681 | spliceosomal complex | CC |
| GO:0000398 | mRNA splicing, via spliceosome | BP |
KEGG
Orthology
- This transcript has been annotated with K12863 (protein CWC15)
Pathway
- This transcript belongs to the following pathways
Expression
Transcript expression in Pv11 cells
TPM values are indicated as average +/- STDEV. 
Differential expression
Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below.
