General information for g6402.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Ubiquitin-conjugating enzyme E2-24 kDa.
Parent gene
- The parent gene g6402 is located on chr_2: 16868670..16870763 (- 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_2 | g6402 | g6402.t4 | TTS | g6402.t4 | 16868058 | 16868058 |
| chr_2 | g6402 | g6402.t4 | isoform | g6402.t4 | 16868316 | 16869160 |
| chr_2 | g6402 | g6402.t4 | exon | g6402.t4.exon1 | 16868316 | 16868328 |
| chr_2 | g6402 | g6402.t4 | exon | g6402.t4.exon2 | 16868386 | 16868470 |
| chr_2 | g6402 | g6402.t4 | exon | g6402.t4.exon3 | 16868533 | 16868673 |
| chr_2 | g6402 | g6402.t4 | cds | g6402.t4.CDS1 | 16868668 | 16868673 |
| chr_2 | g6402 | g6402.t4 | exon | g6402.t4.exon4 | 16868747 | 16868820 |
| chr_2 | g6402 | g6402.t4 | cds | g6402.t4.CDS2 | 16868747 | 16868820 |
| chr_2 | g6402 | g6402.t4 | exon | g6402.t4.exon5 | 16868878 | 16869160 |
| chr_2 | g6402 | g6402.t4 | cds | g6402.t4.CDS3 | 16868878 | 16869160 |
| chr_2 | g6402 | g6402.t4 | TSS | g6402.t4 | 16869268 | 16869268 |
Sequences
>g6402.t4 Gene=g6402 Length=596
ATGTCAACTACATCAGCAGGAAGTGGTGGTGGCTCAAGTGGAGCAGGTGGAAGTCGTCGA
AATGGTGGGAGTAGTGCAGGTAATAGTTCAAGTTCTACAGAACCAAAACCTGAGACAAAG
GAAACAAAATCGAATCCAAAAATATCAAAAGCTTTGGGAACATCGGCAAAACGTATGCAA
AAAGAACTTGCCGAAATCACTCTCGATCCTCCACCAAATTGCTCAGCCGGTCCAAAAGGT
GATAATTTGTATGAATGGGTTTCTACAATTCTTGGACCTCCAGGTTCTGTTTATGAAGGA
GGAGTGTTCTTTTTGGATATACATTTCCCACCAGAATATCCTTTTAAACCTCCAAAAAAC
TAGAATATATCATTGCAATATAAATAGTCAAGGCGTCATTTGTTTGGATATTTTAAAAGA
TAACTGGTCACCCGCACTGACAATTTCAAAAGTTTTACTATCAATTTGTTCTTTGTTAAC
AGACTGTAATCCAGGTTACTGATCCGCTTGTTGGAAGCATTGCTACACAATATTTACAAA
ATAGAGAGGAACATGATCGAATCGCACGCCTTTGGACTAAACGATATGCTACGTGA
>g6402.t4 Gene=g6402 Length=120
MSTTSAGSGGGSSGAGGSRRNGGSSAGNSSSSTEPKPETKETKSNPKISKALGTSAKRMQ
KELAEITLDPPPNCSAGPKGDNLYEWVSTILGPPGSVYEGGVFFLDIHFPPEYPFKPPKN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g6402.t4 | CDD | cd00195 | UBCc | 57 | 119 | 1.90581E-29 |
| 7 | g6402.t4 | Gene3D | G3DSA:3.10.110.10 | Ubiquitin Conjugating Enzyme | 28 | 120 | 2.7E-31 |
| 5 | g6402.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 35 | - |
| 6 | g6402.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 57 | - |
| 2 | g6402.t4 | PANTHER | PTHR24068:SF62 | UBIQUITIN-CONJUGATING ENZYME E2 E2 | 28 | 119 | 1.1E-38 |
| 3 | g6402.t4 | PANTHER | PTHR24068 | UBIQUITIN-CONJUGATING ENZYME E2 | 28 | 119 | 1.1E-38 |
| 1 | g6402.t4 | Pfam | PF00179 | Ubiquitin-conjugating enzyme | 58 | 119 | 7.9E-17 |
| 8 | g6402.t4 | ProSiteProfiles | PS50127 | Ubiquitin-conjugating enzymes family profile. | 57 | 120 | 20.301 |
| 4 | g6402.t4 | SUPERFAMILY | SSF54495 | UBC-like | 44 | 119 | 1.3E-25 |
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.
