General information for g9248.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative E3 ubiquitin-protein ligase lubel.
Parent gene
- The parent gene g9248 is located on chr_1: 1265143..1268324 (- 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 | g9248 | g9248.t4 | TTS | g9248.t4 | 1264953 | 1264953 |
| chr_1 | g9248 | g9248.t4 | isoform | g9248.t4 | 1265143 | 1268324 |
| chr_1 | g9248 | g9248.t4 | exon | g9248.t4.exon1 | 1265143 | 1265274 |
| chr_1 | g9248 | g9248.t4 | cds | g9248.t4.CDS1 | 1265143 | 1265274 |
| chr_1 | g9248 | g9248.t4 | exon | g9248.t4.exon2 | 1265338 | 1265631 |
| chr_1 | g9248 | g9248.t4 | cds | g9248.t4.CDS2 | 1265338 | 1265631 |
| chr_1 | g9248 | g9248.t4 | exon | g9248.t4.exon3 | 1266124 | 1266183 |
| chr_1 | g9248 | g9248.t4 | cds | g9248.t4.CDS3 | 1266124 | 1266159 |
| chr_1 | g9248 | g9248.t4 | exon | g9248.t4.exon4 | 1268166 | 1268324 |
| chr_1 | g9248 | g9248.t4 | TSS | g9248.t4 | 1268568 | 1268568 |
Sequences
>g9248.t4 Gene=g9248 Length=645
TATTTATATTTAGGTGAAATATTTTTGCTTTCCCGGGTTTGAAAATAGTGAAAAAAAATC
TCATTCTCACTCAATTGCGGTAAAAGAAGATTTATCACAATTTATAAAGCGTAAGAGAAA
GAAAGAAAGAAAGAAAGAAAGCGGTAGCAACAGAAGCATACTCAAATTATTATGTCGAAT
AATATGTGGAATCAAGGCCGTCCGATGCCAGATTGGGTGTCGAAGCAAAGTGGAAGAATT
GGTCCACCGCCTCCATCATTGCCAACGAAAAAAATCAATAATGAGCCTGATTATGAAGTC
ATTGATTTTTGCAATAATAATTCAACACCAACAAAAAATGGAAATTTAAGAGACATTATG
CAAGCAAATCCAGCTGAAGTTGGTTTAAAATGTGAACTTTGTGGCTCAATTGGGCAAGTT
GTAAAATGTGAACAATGCGTTAAAAATCTATTTTGTCTTACATGTGATGACATGTTTCAT
CGTCATCCTAAGAGGCAGAATCATCAAAGAAAGCGTGTTGATTTAGGAAATTTACGTCCA
CCATTACCACCAAAAATGACAACCCAACCAGCAGCTCCAATTCCACCACCACGGAAAAAT
CGCAAAAGTTGTCTCTCAAGTCCAATGCCAGAACGTCGTGATCAG
>g9248.t4 Gene=g9248 Length=154
MWNQGRPMPDWVSKQSGRIGPPPPSLPTKKINNEPDYEVIDFCNNNSTPTKNGNLRDIMQ
ANPAEVGLKCELCGSIGQVVKCEQCVKNLFCLTCDDMFHRHPKRQNHQRKRVDLGNLRPP
LPPKMTTQPAAPIPPPRKNRKSCLSSPMPERRDQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value |
|---|---|---|---|---|---|---|
| g9248.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 26 | - |
| g9248.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 102 | 154 | - |
| g9248.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 122 | 136 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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