General information for g2704.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Protein aubergine.
Parent gene
- The parent gene g2704 is located on chr_3: 19776775..19777592 (- 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_3 | g2704 | g2704.t1 | isoform | g2704.t1 | 19776775 | 19777592 |
| chr_3 | g2704 | g2704.t1 | exon | g2704.t1.exon1 | 19776775 | 19777490 |
| chr_3 | g2704 | g2704.t1 | cds | g2704.t1.CDS1 | 19776775 | 19777490 |
| chr_3 | g2704 | g2704.t1 | exon | g2704.t1.exon2 | 19777580 | 19777592 |
| chr_3 | g2704 | g2704.t1 | cds | g2704.t1.CDS2 | 19777580 | 19777592 |
| chr_3 | g2704 | g2704.t1 | TSS | g2704.t1 | 19777704 | 19777704 |
| chr_3 | g2704 | g2704.t1 | TTS | g2704.t1 | NA | NA |
Sequences
>g2704.t1 Gene=g2704 Length=729
ATGGCATCTCGTGGAGTTATTGTTGAAGGTCGGGCAAACTTTTTTCCGATTAATTTTCAT
GAAAATATTCAATTAATTCAATATCGTGTTGATTTTGAGCCTGAAGTTGATGCCACACTT
CTTAAAAAGAAAATAATTACAAAAAATGAAGATTTGTTAAATTTATCACCGCGTTATGTT
TTTGATGGATCGTCACTTTATACACAATCAAATGTGAATAGTGAAGTTGATGCTACGTAC
GATGGCCGTCCTTACAAAATTATTCTTCGACGAACAGGAATCGTAGATGAGAATGACGAA
AACGGTTTATTTCAAACATTCAATCTTATTATGAAGACTACAATGGCAAAGTTGAACTTA
CAAAATATCAAAAGAGATTATTTTGATCCATTAGCTAAGATTGAAATACCTGATCATAAT
ATTGAGCTTTGGCCAGGCTATCAAACTTCCATTCGTCAATATGATGCTGGATTGTTGATG
AATTCTGAAATTATACACAAGTTTATGCGTAAAGAAACCATTTACGATATTACACGTCGT
CTAATGCGAGAAGATAATAATAACTGGCAAGAGAAATTGAAACGGGAAATTCTAGGCACT
ACAGTATTAACTGATTACACAAATAAAACATATGTCATCGATGATATAGCTTTCAATATG
AATCCAAATTCAACATTTCGACTTGCAAATGGTGAAGAAATGAACATATGTCGATTATTA
CATGTCTAA
>g2704.t1 Gene=g2704 Length=242
MASRGVIVEGRANFFPINFHENIQLIQYRVDFEPEVDATLLKKKIITKNEDLLNLSPRYV
FDGSSLYTQSNVNSEVDATYDGRPYKIILRRTGIVDENDENGLFQTFNLIMKTTMAKLNL
QNIKRDYFDPLAKIEIPDHNIELWPGYQTSIRQYDAGLLMNSEIIHKFMRKETIYDITRR
LMREDNNNWQEKLKREILGTTVLTDYTNKTYVIDDIAFNMNPNSTFRLANGEEMNICRLL
HV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g2704.t1 | Gene3D | G3DSA:2.170.260.10 | paz domain | 170 | 238 | 0 |
| 2 | g2704.t1 | PANTHER | PTHR22891 | EUKARYOTIC TRANSLATION INITIATION FACTOR 2C | 11 | 234 | 0 |
| 3 | g2704.t1 | PANTHER | PTHR22891:SF164 | PIWI-LIKE PROTEIN 1 | 11 | 234 | 0 |
| 1 | g2704.t1 | Pfam | PF02170 | PAZ domain | 181 | 232 | 0 |
| 4 | g2704.t1 | SUPERFAMILY | SSF101690 | PAZ domain | 12 | 228 | 0 |
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:0005515 | protein 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.
