General information for g9899.t9
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Cullin-5.
Parent gene
- The parent gene g9899 is located on chr_1: 5914093..5918686 (+ 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 | g9899 | g9899.t9 | isoform | g9899.t9 | 5913488 | 5914093 |
| chr_1 | g9899 | g9899.t9 | exon | g9899.t9.exon1 | 5913488 | 5913885 |
| chr_1 | g9899 | g9899.t9 | cds | g9899.t9.CDS1 | 5913847 | 5913885 |
| chr_1 | g9899 | g9899.t9 | exon | g9899.t9.exon2 | 5913956 | 5914093 |
| chr_1 | g9899 | g9899.t9 | cds | g9899.t9.CDS2 | 5913956 | 5914093 |
| chr_1 | g9899 | g9899.t9 | TTS | g9899.t9 | 5914301 | 5914301 |
| chr_1 | g9899 | g9899.t9 | TSS | g9899.t9 | NA | NA |
Sequences
>g9899.t9 Gene=g9899 Length=536
TATTTGCGTGGAATCAACGTCCTAATGATAAAGTTTCATATGAGAATTTAAGGCTCGCAA
CTGAATTACCTGACCCTGAGCTAAGAAGAACTCTTTGGTCGCTTGTGGCGTTTCCTAAAC
TGAAAAGACAGCTTTTAAATTATGATCCAATCGTTCAAGTGCCAAAAGATTTTGACGAGA
ACACGGTTTTTTGGATAAATCAAGAATTCTCAATTATTAAAAATGGAAAGCCTCAAAAAA
GAGGTAAAATTAATTTAATTGGGAGACTTCAACTCAGTACAGAGCGCTCTCAGCAAGAAG
ACAATCAATCGATTGTGCAATTGAGAATTCTCAGAACACAAGAAGCAATCATTAAAATTA
TGAAAATGAGAAAGAGAATGTCGAATGCTGCTTTACAGTCTGAACTTATTGAGATATTGA
AAAATATGTTTTTACCCTCGAAAAAAATGATTAAAGAGCAATTGGAGTGGTTAATTGAAC
AAAAATATCTTGCTCGTGACGACAGTGATATAAACGTATTTAATTATATGGCTTGA
>g9899.t9 Gene=g9899 Length=58
MKMRKRMSNAALQSELIEILKNMFLPSKKMIKEQLEWLIEQKYLARDDSDINVFNYMA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g9899.t9 | Gene3D | G3DSA:1.10.10.10 | winged helix repressor DNA binding domain | 1 | 58 | 1.2E-22 |
| 2 | g9899.t9 | PANTHER | PTHR11932 | CULLIN | 1 | 58 | 4.5E-26 |
| 3 | g9899.t9 | PANTHER | PTHR11932:SF76 | CULLIN-5 | 1 | 58 | 4.5E-26 |
| 1 | g9899.t9 | Pfam | PF10557 | Cullin protein neddylation domain | 1 | 50 | 5.2E-15 |
| 6 | g9899.t9 | ProSitePatterns | PS01256 | Cullin family signature. | 31 | 58 | - |
| 5 | g9899.t9 | SMART | SM00884 | Cullin_Nedd8_2 | 1 | 52 | 1.1E-10 |
| 4 | g9899.t9 | SUPERFAMILY | SSF46785 | Winged helix DNA-binding domain | 1 | 58 | 1.13E-16 |
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:0006511 | ubiquitin-dependent protein catabolic process | BP |
| GO:0031625 | ubiquitin protein ligase binding | MF |
| GO:0031461 | cullin-RING ubiquitin ligase complex | CC |
KEGG
Orthology
This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
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.
