General information for g362.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative RNA-directed DNA polymerase from mobile element jockey.
Parent gene
- The parent gene g362 is located on chr_3: 2959070..2965288 (- 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 | g362 | g362.t3 | TTS | g362.t3 | 2957990 | 2957990 |
| chr_3 | g362 | g362.t3 | isoform | g362.t3 | 2958008 | 2959143 |
| chr_3 | g362 | g362.t3 | exon | g362.t3.exon1 | 2958008 | 2959143 |
| chr_3 | g362 | g362.t3 | cds | g362.t3.CDS1 | 2958376 | 2959077 |
| chr_3 | g362 | g362.t3 | TSS | g362.t3 | NA | NA |
Sequences
>g362.t3 Gene=g362 Length=1136
GGTCTGCTTTCACTAGATGTCGAGAAAGCATTCGATCGTATCTGGCATGATGGACTTATT
GCAAAGATGATTGATTTCGATTTTCCAACTAATTTGATCTTAATCACAAAATCGTTCTTG
TCCGAGAGAACGTTTAAAGTGATTTGTAATGGCTCATATTCAACTATCCGCTCAATTCGA
GCCGGGGTACCACAAGGTGCAGTCCTGAGTCCAACGCTCTACAACATTTACACGGCGGAT
ATCCCATTAAATAGTTTTTACGAGACAACCATGTTTGCAGACGACACTTCATTTTACAAA
ACTGCGTTACATCACTCGACAATTTCATCAAAACTTAAAGTCGCATCAAGAAGTATTGAG
ACGTATATGACCAAATGGAAAATTTCTATAAACAAGGACAAAACTGCTGCAATTTACATC
ACAAATCGTAGGAAAAATGAAATTCCAACGGGTCCAATTGAAGTTTTTGGAACCTTTATC
AATTGGCAAGATTCAATCAAACTTCTAGGAGTGCACCTTGACAAACGCTTAACTTTTAAG
TATCATATTGAAAATGTGACTAGAAAAGCAAATATCGCAATTCGTACTCTTTACCCTCTT
ATAAATCGTAAATCAAAACTACACATCACAAATAAGCTTCTATTATACAAATTAGCAATA
AGACCTATCCTGACATACGGATATCCAGCATTTCATGGCATCATCGCCGCAACTCATACG
CGAAAACTTCAAACGCTACAAAACAGAACTTTGAAAAATGATCCTTGATCGTCCTTGGTG
GGAGAGCACAGAGCAAATTCATGCAGAAACTAAACTTCCACGGATAAACGATTATCTCAA
AAAGATTAATACAAAATTTATAACAAAATTAACTTAATCATAGCCTTAGGATATTATTAC
TTTATGTAAAATCATTACGACCTTTATTTAAAAAATCATTTTTTAATTTTTTTTCTTTTA
ATCTTAAATAATTTTTTGACTCTCAATACATAATTAATTATATCAAAACTTTTCCTAAAA
TTTGTAACTTCTCACAGTTTTTGTTGAATTGGCAATAGCCACACCACAAATTAACTTTCA
AATATTGTAAACAAATGCTGTTTCTTTAAATGGTCTTAATAAAATAAAACTGAACT
>g362.t3 Gene=g362 Length=233
MIDFDFPTNLILITKSFLSERTFKVICNGSYSTIRSIRAGVPQGAVLSPTLYNIYTADIP
LNSFYETTMFADDTSFYKTALHHSTISSKLKVASRSIETYMTKWKISINKDKTAAIYITN
RRKNEIPTGPIEVFGTFINWQDSIKLLGVHLDKRLTFKYHIENVTRKANIAIRTLYPLIN
RKSKLHITNKLLLYKLAIRPILTYGYPAFHGIIAATHTRKLQTLQNRTLKNDP
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g362.t3 | PANTHER | PTHR33332 | - | 8 | 229 | 0.000 |
| 1 | g362.t3 | Pfam | PF00078 | Reverse transcriptase (RNA-dependent DNA polymerase) | 3 | 151 | 0.000 |
| 3 | g362.t3 | ProSiteProfiles | PS50878 | Reverse transcriptase (RT) catalytic domain profile. | 1 | 151 | 12.893 |
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.
