General information for g13839.t9
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Protein Mo25.
Parent gene
- The parent gene g13839 is located on chr_1: 32737232..32737698 (- 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 | g13839 | g13839.t9 | isoform | g13839.t9 | 32735473 | 32737640 |
| chr_1 | g13839 | g13839.t9 | exon | g13839.t9.exon1 | 32735473 | 32735598 |
| chr_1 | g13839 | g13839.t9 | cds | g13839.t9.CDS1 | 32735473 | 32735598 |
| chr_1 | g13839 | g13839.t9 | exon | g13839.t9.exon2 | 32735665 | 32736093 |
| chr_1 | g13839 | g13839.t9 | cds | g13839.t9.CDS2 | 32735665 | 32736093 |
| chr_1 | g13839 | g13839.t9 | exon | g13839.t9.exon3 | 32737391 | 32737483 |
| chr_1 | g13839 | g13839.t9 | cds | g13839.t9.CDS3 | 32737391 | 32737483 |
| chr_1 | g13839 | g13839.t9 | exon | g13839.t9.exon4 | 32737593 | 32737640 |
| chr_1 | g13839 | g13839.t9 | cds | g13839.t9.CDS4 | 32737593 | 32737640 |
| chr_1 | g13839 | g13839.t9 | TSS | g13839.t9 | 32737725 | 32737725 |
| chr_1 | g13839 | g13839.t9 | TTS | g13839.t9 | NA | NA |
Sequences
>g13839.t9 Gene=g13839 Length=696
ATGCCTTTTTTTGGTAAATCACAGAAATCTCCAGCCGAGCTTGTGAAGGCTCTAAAAGAG
GCTCTGAAAGCATTAGAAACGCTTAAAGCGGGTGGTGATAAAAAGGCAGAAAAGGCACAG
GAGGATGTCAGTAAAAATCTGGTGTCAATCAAAAATATGCTCTATGGGACATCAGATTCG
GAGCCTCAAACAGATATTGTCGTATCACAATTAGCACAGGAACTGTATAATAGTAATCTT
CTTCTCCTACTCATACAAAATCTTAATCAAATTGACTTTGAAGGCAAAAAAGATGTTGCA
CTAGTGTTCAATAATGTACTTAGAAGACAAATCGGAACTCGTTCACCGACTGTCGAATAT
ATCTGCACGAAACCTGAAATTTTATTTACACTCATGGCTGGTTACGAACATCAAGAAATA
GCACTCAATTGCGGCACAATGCTGCGAGAATGTGCACGCTATGAGGCACTCGCTAAAATC
ATGCTTTATTCAGATGAGTTCTTCAACTTTTTCCAGTACGTTGAAGTGTCAACATTCGAT
ATCGCTAGCGATGCATTTTCAACTTTTAAGGAACTGCTTACCCGTCATAAAATTCTTTGT
GCGGAATTTTTGGAAACGAATTATGATAAAGTTTTTACTCATTACCAACGGTTATTGAAT
TCAGAAAACTACGTTACAAGACGTCAGAGCTTGAAG
>g13839.t9 Gene=g13839 Length=232
MPFFGKSQKSPAELVKALKEALKALETLKAGGDKKAEKAQEDVSKNLVSIKNMLYGTSDS
EPQTDIVVSQLAQELYNSNLLLLLIQNLNQIDFEGKKDVALVFNNVLRRQIGTRSPTVEY
ICTKPEILFTLMAGYEHQEIALNCGTMLRECARYEALAKIMLYSDEFFNFFQYVEVSTFD
IASDAFSTFKELLTRHKILCAEFLETNYDKVFTHYQRLLNSENYVTRRQSLK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g13839.t9 | Gene3D | G3DSA:1.25.10.10 | - | 2 | 232 | 0 |
| 2 | g13839.t9 | PANTHER | PTHR10182:SF11 | CALCIUM-BINDING PROTEIN 39 | 1 | 232 | 0 |
| 3 | g13839.t9 | PANTHER | PTHR10182 | CALCIUM-BINDING PROTEIN 39-RELATED | 1 | 232 | 0 |
| 1 | g13839.t9 | Pfam | PF08569 | Mo25-like | 3 | 232 | 0 |
| 4 | g13839.t9 | SUPERFAMILY | SSF48371 | ARM repeat | 9 | 232 | 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.
