General information for g14590.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Ubiquitin-like-conjugating enzyme ATG3.
Parent gene
- The parent gene g14590 is located on chr_4: 1426882..1427787 (+ 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_4 | g14590 | g14590.t1 | TSS | g14590.t1 | 1426834 | 1426834 |
| chr_4 | g14590 | g14590.t1 | isoform | g14590.t1 | 1426882 | 1427787 |
| chr_4 | g14590 | g14590.t1 | exon | g14590.t1.exon1 | 1426882 | 1427787 |
| chr_4 | g14590 | g14590.t1 | cds | g14590.t1.CDS1 | 1426882 | 1427787 |
| chr_4 | g14590 | g14590.t1 | TTS | g14590.t1 | 1427948 | 1427948 |
Sequences
>g14590.t1 Gene=g14590 Length=906
ATGGATTCTCTAGTGAATAAAATTAAACAAACAACATTATCAGTTGCAGAACAATTAACT
CCAGTTTTGCGTGAGTCTAAATTTAAAGAGAGCGGTCGGATAACACCTGAGGAATTTGTT
GCTGCTGGTGATCATTTAATTTTCATTAGTCCAACATGGCAATGGATGACAGGTGATGAA
GCTAAAATCAAGTCCTATTTACCACGGGATAAACAATTTCTTGTCACTAAAAATGTGCCA
TGCTTGAGACGATGCAAACAAATGGAATTCACTGGAGTGGAAAAAATTGTCGAAGATGTC
GAAGGTGAAGATGGTTGGGTGACTCATGAGACTGATGACATGAATTTAAATGAATGTGCT
GAAGAAATGACATTAGATAGCAGCAAAATGGATGATATTGAGCCAAAGAATGAAGATGAG
GATGATGATGATCAAGAAGCATTAGATATGGAAGAATTTGATGTTGATAATGTTGATCCA
TCAGTGGCAATTATAAAACCAACTCCAATTGCAACAACAAAAGACTCAGAAACAGATTCC
GTAATTCATACAAGAACTTATGATCTTCATATAGTTTATAACAAGTATTATCAAACTCCA
CATCTTTTTCTTATTGGTTATGATGAAAATCGTCAAGTGCTAAATATTGATCAAATGTAT
GAAGATGTATCTCAAGATAATGCCAAGAAAACTGTCACTTATGAAGCTCATCCACATTTG
GGTCCATCAATGTTGGCTGTGCATCCATGCAAGCATTCAGATTTGATGAAAAAATTCTTA
CAAATTGCTGAAGAAGGTGGAAATGAATTGTCAGTTTATTCTTATCTCATTATCTTCCTT
AAATTTGTTCAATCAGTTATTCCAACTGTTAATTATGACTTTTCTCAAACAATTAAAACT
ACTTAA
>g14590.t1 Gene=g14590 Length=301
MDSLVNKIKQTTLSVAEQLTPVLRESKFKESGRITPEEFVAAGDHLIFISPTWQWMTGDE
AKIKSYLPRDKQFLVTKNVPCLRRCKQMEFTGVEKIVEDVEGEDGWVTHETDDMNLNECA
EEMTLDSSKMDDIEPKNEDEDDDDQEALDMEEFDVDNVDPSVAIIKPTPIATTKDSETDS
VIHTRTYDLHIVYNKYYQTPHLFLIGYDENRQVLNIDQMYEDVSQDNAKKTVTYEAHPHL
GPSMLAVHPCKHSDLMKKFLQIAEEGGNELSVYSYLIIFLKFVQSVIPTVNYDFSQTIKT
T
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g14590.t1 | Gene3D | G3DSA:3.30.1460.50 | - | 23 | 129 | 0 |
| 5 | g14590.t1 | Gene3D | G3DSA:3.30.1460.50 | - | 166 | 301 | 0 |
| 2 | g14590.t1 | PANTHER | PTHR12866 | UBIQUITIN-LIKE-CONJUGATING ENZYME ATG3 | 1 | 298 | 0 |
| 3 | g14590.t1 | PANTHER | PTHR12866:SF2 | UBIQUITIN-LIKE-CONJUGATING ENZYME ATG3 | 1 | 298 | 0 |
| 1 | g14590.t1 | Pfam | PF03987 | Autophagocytosis associated protein, active-site domain | 38 | 294 | 0 |
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 transcript has been annotated with K08343 (ubiquitin-like-conjugating enzyme ATG3)
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.
