General information for g2509.t29
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g2509 is located on chr_3: 18339764..18340445 (- 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 | g2509 | g2509.t29 | isoform | g2509.t29 | 18339764 | 18340445 |
| chr_3 | g2509 | g2509.t29 | exon | g2509.t29.exon1 | 18339764 | 18340445 |
| chr_3 | g2509 | g2509.t29 | cds | g2509.t29.CDS1 | 18339765 | 18340445 |
| chr_3 | g2509 | g2509.t29 | TSS | g2509.t29 | 18340524 | 18340524 |
| chr_3 | g2509 | g2509.t29 | TTS | g2509.t29 | NA | NA |
Sequences
>g2509.t29 Gene=g2509 Length=682
ATGAATAATCCATTTGCATCATTAGTAGAGCCACAGAAAATCAATGAAATTGTTGAGAAC
ACACTATTGTTAACGTTAAATCCAGAAAAAAGTAATTTGTATTATGTGTCGAATGACGAG
TCAAAATTTTTCACTCTAGAGCTTCTTGAATTCGTGCTATTTGAGCGAATTATTGCCTTT
GATATTGAAACAGACAACGATAAAAAGGTAATTCTTTATCTATACAACTGTTTTCAACGA
GTCCAAGAGGAAGTAAAAAAGTATGGCAGTTCAAACGAGTTAATCAATGTTTTGAGAAAA
ATAGAGCAGCTAATTTTTCAAAATATATCGACAATTCTAAAAGAACCAGAGCTCATACCA
AATCAAAATTTGAGTTCTCAGTTTTTGGATATTTATAAATATGATCAAGATATTGATAAT
GAGAGAGATAGATTTCTTTCGATGTCAATTCTAACAGCACTTTCGGATTGTGATTCTGAT
ATGAAAAAGAATGTTACAGAAATTTTTAACAAATGTTTCGATACTTGTACACGAATCGTT
AAAATATCGTCTATGATCACATTAGAAAAATGGGTATTGAGTTTCTTAATGGCTTTTTCA
AGTGACAAAAATAATCCAGCTATGGCAAATATGTTCATTGATTACATTACACCACCAGAA
AACAGCGAAGGAATCAAATACT
>g2509.t29 Gene=g2509 Length=227
MNNPFASLVEPQKINEIVENTLLLTLNPEKSNLYYVSNDESKFFTLELLEFVLFERIIAF
DIETDNDKKVILYLYNCFQRVQEEVKKYGSSNELINVLRKIEQLIFQNISTILKEPELIP
NQNLSSQFLDIYKYDQDIDNERDRFLSMSILTALSDCDSDMKKNVTEIFNKCFDTCTRIV
KISSMITLEKWVLSFLMAFSSDKNNPAMANMFIDYITPPENSEGIKY
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value |
|---|---|---|---|---|---|---|
| g2509.t29 | PANTHER | PTHR13931:SF2 | UBIQUITIN CONJUGATION FACTOR E4 A | 12 | 224 | 0 |
| g2509.t29 | PANTHER | PTHR13931 | UBIQUITINATION FACTOR E4 | 12 | 224 | 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 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