General information for g3408.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g3408 is located on chr_3: 25236121..25240468 (- 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 | g3408 | g3408.t3 | TTS | g3408.t3 | 25226421 | 25226421 |
| chr_3 | g3408 | g3408.t3 | isoform | g3408.t3 | 25227005 | 25228109 |
| chr_3 | g3408 | g3408.t3 | exon | g3408.t3.exon1 | 25227005 | 25228109 |
| chr_3 | g3408 | g3408.t3 | cds | g3408.t3.CDS1 | 25227441 | 25227731 |
| chr_3 | g3408 | g3408.t3 | TSS | g3408.t3 | NA | NA |
Sequences
>g3408.t3 Gene=g3408 Length=1105
GCAACGTCAGATGATGATTTACTTTCTACTGATTTAGATGGTGAAGGAGGAAGTCTTGAC
GATTTAAGTAATAAAGATAAAGACAATGATAGTCACAAAATAAGTCGTGATTCACGAGAA
GTTAGTGTTGATTCAGCTCTTAGTTCAGCAGACGGATGTTCTTCATCACCATCTGGTAAT
CAACGTTTCTCGACTAACAGTAGTGCTGCAGGAGATGAAGAATTTGCTGTAAAATACAAT
TTACGTGAACAAAATATTGATTATATTCCATCTATCTCAAGAACAAAACAACAAGGGGTA
ACAATTATTCATCAGCAGCGTTCATCACAACAGTCAACTTCTCGAAATGTAGTGACGACA
TGTACAATAAGTCCCACTATGATGAAAAATGGAAGTGAAGGACGTGAACAGCGTGGATCA
GATTTACAGCGGCAGAAACCGATTGTAATGAGAAGTATAAGTGGCAGCGGATATGAGCAA
TCAAAAAAATGTGCAACTTCACCAATCAGCAGTGGTAGTGCTAGTAATATTGGACTGCAG
AGAGCAGCTACAACTATGGCTGCAATAGACACATTAAATATTAACAACAATAATAACAAT
AATGATGACGATGAAAATGGACGAAAATCAAAGAGTCAGAGTATTGAAGATGAACCAATT
ATGGTGTAATTTCTTTTTTTTTTTTTTTAAATTGATCAACATTAATGAAAAAAATTCCTT
TAAATGAAAAGAATAAGAAAATTTTCATGTGATATCTAAAGAAAAAAGGTAAAAGATTTA
AAGTCTTTTCAAATTGTAAAATAATTCCATTTTGAAATTATGTGAGTGATGAAATTTCGT
GTAATTCCAATTTGTTAAGTATTTTTCAGTATTTTATCCTCACCCTAAAAGGAATGTTTG
TTTTTATTTGATTGTATTTGACGAATAAACTACATACATACATACATATATAAATGCACA
CATACATTTCGATAAAACATGTTGAACATAAAGGCCTTTTGTATGGAATTTACTCTGATG
CCAGAACATCACAAAAAAGAGAGAATGATCCAATTCCTTGATTATATTTTATTTAATTTA
CAAGGAAAACTATGTACAAAAACAA
>g3408.t3 Gene=g3408 Length=96
MMKNGSEGREQRGSDLQRQKPIVMRSISGSGYEQSKKCATSPISSGSASNIGLQRAATTM
AAIDTLNINNNNNNNDDDENGRKSKSQSIEDEPIMV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 1 | g3408.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 16 | - |
| 4 | g3408.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 49 | - |
| 3 | g3408.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 21 | 49 | - |
| 2 | g3408.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 68 | 96 | - |
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.
