General information for g407.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Mariner Mos1 transposase.
Parent gene
- The parent gene g407 is located on chr_3: 3223736..3224663 (+ 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 | g407 | g407.t1 | isoform | g407.t1 | 3223736 | 3224663 |
| chr_3 | g407 | g407.t1 | exon | g407.t1.exon1 | 3223736 | 3223930 |
| chr_3 | g407 | g407.t1 | cds | g407.t1.CDS1 | 3223736 | 3223930 |
| chr_3 | g407 | g407.t1 | exon | g407.t1.exon2 | 3224131 | 3224420 |
| chr_3 | g407 | g407.t1 | cds | g407.t1.CDS2 | 3224131 | 3224420 |
| chr_3 | g407 | g407.t1 | exon | g407.t1.exon3 | 3224495 | 3224663 |
| chr_3 | g407 | g407.t1 | cds | g407.t1.CDS3 | 3224495 | 3224663 |
| chr_3 | g407 | g407.t1 | TSS | g407.t1 | NA | NA |
| chr_3 | g407 | g407.t1 | TTS | g407.t1 | NA | NA |
Sequences
>g407.t1 Gene=g407 Length=654
ATGTCTAGCGTTCTAAAAATCTTTTTTTTAGGTTCAGGAGCAAAGAACACTTTTGATGAT
TCTTATTTGGAACTAATTGTCAAAAGTAATCCCACAATGACTTTAACTGAGTATGCAGAC
CTATTTGGCGTTACTAAATCATGCATCTCAAAGAGATTAAAAGCTTTGGATTACACTTCT
AAAATATCTTATTGGCGCAAGAAGAGTGGTCGAAGTGTTGGTGCTACACCTGGTAATATT
TCCAAAGCTGCATTACACCCAAAAAAAATTATGCTTTGCCTATGGTGGGACATTCATGGA
GTGATTTATTATGAGCTACTTCCACCGAATGAAACAATAAATGCTCAAAAATATCAAGCA
CAGTTGAAGTCTTTGAAGGAAGCACTTGCTCTAAAGCGGCCAGCTCTATTGAACCGTAAC
AAGGTTCATTTTCATCATGATAACGCAAGGCCACACACTGCTCGTGATACTGTGGCCTTG
CTAAAATCATTACAAAATGCACTTAATGGTAAGAATTTTCAAAACAAAGCAGAGTTGGAA
ACTTTCCTTAATGAATTTTTTGATAATAAGCCTAATGGCTACTATAAGACAGGTATTTAC
AAGTTACCTGAATTATGGAAAAATGTTTCAGAGAATGGTGGTGCATATTTGTAA
>g407.t1 Gene=g407 Length=217
MSSVLKIFFLGSGAKNTFDDSYLELIVKSNPTMTLTEYADLFGVTKSCISKRLKALDYTS
KISYWRKKSGRSVGATPGNISKAALHPKKIMLCLWWDIHGVIYYELLPPNETINAQKYQA
QLKSLKEALALKRPALLNRNKVHFHHDNARPHTARDTVALLKSLQNALNGKNFQNKAELE
TFLNEFFDNKPNGYYKTGIYKLPELWKNVSENGGAYL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g407.t1 | Gene3D | G3DSA:1.10.10.10 | winged helix repressor DNA binding domain | 19 | 53 | 0 |
| 6 | g407.t1 | Gene3D | G3DSA:3.30.420.470 | - | 54 | 217 | 0 |
| 3 | g407.t1 | PANTHER | PTHR46060 | MARINER MOS1 TRANSPOSASE-LIKE PROTEIN | 74 | 155 | 0 |
| 5 | g407.t1 | PANTHER | PTHR46060:SF3 | - | 74 | 155 | 0 |
| 2 | g407.t1 | PANTHER | PTHR46060 | MARINER MOS1 TRANSPOSASE-LIKE PROTEIN | 160 | 216 | 0 |
| 4 | g407.t1 | PANTHER | PTHR46060:SF3 | - | 160 | 216 | 0 |
| 1 | g407.t1 | Pfam | PF01359 | Transposase (partial DDE domain) | 74 | 138 | 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