General information for g3378.t11
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g3378 is located on chr_3: 24971572..24977000 (- 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 | g3378 | g3378.t11 | TTS | g3378.t11 | 24970740 | 24970740 |
| chr_3 | g3378 | g3378.t11 | isoform | g3378.t11 | 24971572 | 24977000 |
| chr_3 | g3378 | g3378.t11 | exon | g3378.t11.exon1 | 24971572 | 24972146 |
| chr_3 | g3378 | g3378.t11 | cds | g3378.t11.CDS1 | 24971573 | 24972079 |
| chr_3 | g3378 | g3378.t11 | exon | g3378.t11.exon2 | 24976483 | 24977000 |
| chr_3 | g3378 | g3378.t11 | TSS | g3378.t11 | NA | NA |
Sequences
>g3378.t11 Gene=g3378 Length=1093
TCTCGCGATTTGACTTGCTCAAATGCACGAATGAAACTTGAAAACCGATTGTAGAACACA
GTTCTCCATAGAGGACGACAATTTTTATAAACTTGATCAATCGTGAAGATGCTCTTCTAG
CAACGAGACGCGAAAAATATTTAATCAAGTTAATTTATACGTGAATCAAATTCTTTATAC
AAAAATTTATTTTTTTAAATTTTTAATAAAATAAAATTTATTAAAAATTTGTCGGGTCTC
TCTACAATAAAAAATCAACCAAAAAAAGTCTTCAAGTTTACTAAGAGTTAAAAGCTATCC
CGATTAAAAATTAAAATAAAAGTGCCAAATTCAAATTAAATGCAGCAATTAATTAAATTG
CTGTGAAATATAGTGCCTTTAAAATAATAAAAATTATTTTCATGAGAATATTCAATTAAT
TAAATAATATAAGTGCTTATAGAAAGCAGAAAAAGAAAAAAAGTTGTAAAATAAATCCTA
AACAAAAAGTCAAAAGTTTTTATTGTACACAACAAGTAATTTTTATAAACAGTCAAAATT
TCGCCCTCAAAAACGGATTACATAACGCCTTCGCGCTCTATCCCAATGCCAGCTTATTAC
GAGATGCTGGTATCACAAAGTCCTCCACTATTCAGTCATAGTCCTCCGACTGGATTTCTA
TCAGAGTATGGACCTAATCGATTCTATGAATCGCCACGCTTTTGTCGATCAGCCGCTGTC
CTCTCGCCACTTTCACAACGCCGTTTTGCGCAAAACAATCCACAAACTTCCTTATATCAA
TCACATTTACAAAGTCTAACGCCATATAAACCATGCATTGTACCTAAACCACGCCGTTCA
TGCCTTATTGTTCGAAACGAGCCAGATCACTTGAAAAACGATACAACTAGCGATAGCAGC
GAAGATAGTGATGATTGCGACAGACAAGTACGTAAGCCAAAAAAGCGTGTCGTATTTGCG
GATGACAAAGGGCTCGAATTAGAACAAGTTAAAATAATGTCGGAGGCATCAACTCAACCG
CCAACGTGGTCACTGCAATTTCTCGCACACGTTACTCAGGGAATGATTTCGCCTGTGCCA
CAAGAGCAGTGGA
>g3378.t11 Gene=g3378 Length=169
MPAYYEMLVSQSPPLFSHSPPTGFLSEYGPNRFYESPRFCRSAAVLSPLSQRRFAQNNPQ
TSLYQSHLQSLTPYKPCIVPKPRRSCLIVRNEPDHLKNDTTSDSSEDSDDCDRQVRKPKK
RVVFADDKGLELEQVKIMSEASTQPPTWSLQFLAHVTQGMISPVPQEQW
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 3 | g3378.t11 | MobiDBLite | mobidb-lite | consensus disorder prediction | 89 | 118 | - |
| 1 | g3378.t11 | PANTHER | PTHR12307:SF47 | PROTEIN PHOSPHATASE 1 REGULATORY SUBUNIT | 52 | 160 | 2.5E-12 |
| 2 | g3378.t11 | PANTHER | PTHR12307 | PROTEIN PHOSPHATASE 1 REGULATORY SUBUNIT | 52 | 160 | 2.5E-12 |
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.
