General information for g9899.t7
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.t7 | isoform | g9899.t7 | 5913390 | 5914093 |
| chr_1 | g9899 | g9899.t7 | exon | g9899.t7.exon1 | 5913390 | 5913397 |
| chr_1 | g9899 | g9899.t7 | exon | g9899.t7.exon2 | 5913464 | 5913866 |
| chr_1 | g9899 | g9899.t7 | cds | g9899.t7.CDS1 | 5913478 | 5913866 |
| chr_1 | g9899 | g9899.t7 | exon | g9899.t7.exon3 | 5913956 | 5914093 |
| chr_1 | g9899 | g9899.t7 | cds | g9899.t7.CDS2 | 5913956 | 5913977 |
| chr_1 | g9899 | g9899.t7 | TTS | g9899.t7 | 5914301 | 5914301 |
| chr_1 | g9899 | g9899.t7 | TSS | g9899.t7 | NA | NA |
Sequences
>g9899.t7 Gene=g9899 Length=549
TTTGGATGTGACAACATTTCAAATGGCAGTACTATTTGCGTGGAATCAACGTCCTAATGA
TAAAGTTTCATATGAGAATTTAAGGCTCGCAACTGAATTACCTGACCCTGAGCTAAGAAG
AACTCTTTGGTCGCTTGTGGCGTTTCCTAAACTGAAAAGACAGCTTTTAAATTATGATCC
AATCGTTCAAGTGCCAAAAGATTTTGACGAGAACACGGTTTTTTGGATAAATCAAGAATT
CTCAATTATTAAAAATGGAAAGCCTCAAAAAAGAGGTAAAATTAATTTAATTGGGAGACT
TCAACTCAGTACAGAGCGCTCTCAGCAAGAAGACAATCAATCGATTGTGCAATTGAGAAT
TCTCAGAACACAAGAAGCAATCATTAAAATTATGAAAATGAGAAAGAGAATTCTGAACTT
ATTGAGATATTGAAAAATATGTTTTTACCCTCGAAAAAAATGATTAAAGAGCAATTGGAG
TGGTTAATTGAACAAAAATATCTTGCTCGTGACGACAGTGATATAAACGTATTTAATTAT
ATGGCTTGA
>g9899.t7 Gene=g9899 Length=136
MAVLFAWNQRPNDKVSYENLRLATELPDPELRRTLWSLVAFPKLKRQLLNYDPIVQVPKD
FDENTVFWINQEFSIIKNGKPQKRGKINLIGRLQLSTERSQQEDNQSIVQLRILRTQEAI
IKIMKMRKRILNLLRY
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g9899.t7 | Gene3D | G3DSA:1.10.10.2620 | - | 1 | 94 | 0.000 |
| 6 | g9899.t7 | Gene3D | G3DSA:1.10.10.10 | winged helix repressor DNA binding domain | 95 | 133 | 0.000 |
| 2 | g9899.t7 | PANTHER | PTHR11932 | CULLIN | 1 | 132 | 0.000 |
| 3 | g9899.t7 | PANTHER | PTHR11932:SF76 | CULLIN-5 | 1 | 132 | 0.000 |
| 1 | g9899.t7 | Pfam | PF00888 | Cullin family | 1 | 73 | 0.000 |
| 7 | g9899.t7 | ProSiteProfiles | PS50069 | Cullin family profile. | 1 | 39 | 9.628 |
| 4 | g9899.t7 | SUPERFAMILY | SSF75632 | Cullin homology domain | 1 | 74 | 0.000 |
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 |
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. There were no conditions that were differentially expressed