General information for g13384.t8
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Vacuolar protein sorting-associated protein 4B.
Parent gene
- The parent gene g13384 is located on chr_1: 29620442..29621850 (- 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 | g13384 | g13384.t8 | TTS | g13384.t8 | 29619487 | 29619487 |
| chr_1 | g13384 | g13384.t8 | isoform | g13384.t8 | 29619496 | 29621850 |
| chr_1 | g13384 | g13384.t8 | exon | g13384.t8.exon1 | 29619496 | 29620015 |
| chr_1 | g13384 | g13384.t8 | cds | g13384.t8.CDS1 | 29619914 | 29620015 |
| chr_1 | g13384 | g13384.t8 | exon | g13384.t8.exon2 | 29620075 | 29620778 |
| chr_1 | g13384 | g13384.t8 | cds | g13384.t8.CDS2 | 29620075 | 29620383 |
| chr_1 | g13384 | g13384.t8 | exon | g13384.t8.exon3 | 29620852 | 29621086 |
| chr_1 | g13384 | g13384.t8 | exon | g13384.t8.exon4 | 29621146 | 29621284 |
| chr_1 | g13384 | g13384.t8 | exon | g13384.t8.exon5 | 29621346 | 29621509 |
| chr_1 | g13384 | g13384.t8 | exon | g13384.t8.exon6 | 29621708 | 29621850 |
| chr_1 | g13384 | g13384.t8 | TSS | g13384.t8 | 29621850 | 29621850 |
Sequences
>g13384.t8 Gene=g13384 Length=1905
ACAACAACAACATTGAAAATAATAAAATTGTGCAAAAAATTTATAAATTTGAGAAAAATA
GCATTAAAATCAAATATCGACACTTTATTATCCTTCATTTGTTAAAATAACAACAATTGC
TGCTTAAGTGACAGTAAAACAAGAAGTTGGATCAAAAATCAATAACTTATAATGGCTGCT
GGAACAACTTTACAAAAAGCTATTGATATAGTAACGAAAGCAACAGAGGAAGATAGAAAT
AAAAATTATGAGGAAGCATTAAGGCTATATGAGCATGGTGTTGAATATTTTCTTCACGCT
ATTAAATACGAAGCTCAAGGTGACAAAGCAAAAGAATCGATTAGAGCAAAATGTTTACAG
TATCTTGATCGTGCAGAGAAACTCAAACAATATTTGAAAAAAGGAAAAAAGCAGAAACCT
GTAAAAGATGGAGATACAGGTTCCAAAGATAAAGATAAGAAAAGTGATAGTGATTCAGAT
GAAGATGATCCAGAGAAAAAGAAACTTCAGAGTAAATTGGAAGGCGCAATTGTTGTTGAG
AAACCTAAGGTTAAATGGTCAGATGTAGCCGGTCTCGAAGGCGCTAAGGAAGCGCTTAAA
GAAGCAGTCATTCTGCCAATAAAATTTCCTCATTTATTTACTGGAAAAAGAGTTCCATGG
AAAGGAATTTTACTCTTTGGGGTACTGGTAAATCTTATTTGGCTAAAGCTGTTGCAACAG
AAGCAAATAATTCTACATTCTTCTCTGTATCGAGTGCTGATTTGGTTTCAAAATGGCTCG
GTGAATCAGAAAAGCTCGTTAGAAATCTCTTTGACTTGGCTCGTGCTCACAAGCCTAGTA
TCATCTTTATCGATGAAGTTGACTCTTTATGTTCTTCTCGTTCTGAAAACGAAAGTGAAA
GTGCCCGTCGTATCAAAACCGAATTTCTTGTTCAAATGCAAGGTGTAGGCAATGATAATG
AAGGAATTCTCGTTCTTGGTGCGACAAATATTCCATGGGTTCTTGATTCTGCTATTAGAA
GACGTTTTGAAAAAAGAATTTATATACCTTTGCCTGAAGAAAACGCTCGCTTGGTCATGT
TTAAAATTCATTTGGGCAACACATCGCATGTATTGACAGAAGAAAATTTAAGACAACTCG
CAAAACAAACTGAAGGTTATTCAGGTGCTGATATTTCAATTGTAGTCCGTGATGCTCTTA
TGCAACCTGTTCGAAAAGTTCAGACAGCAACACATTTTAAAAGGATTCGCGGTCCATCGC
CTTTGGATAAAAATGTAATGGTAGATGATCTTCTTACACCTTGCTCGCCTGGTGAAAAAG
GAGCAATTGAAATGACTTGGATGGAAGTTGAGGGAGAGAAACTTTTTGAACCTCCAGTAA
CAATGGGTGACATGCTTAATTCACTTGCAAGAACAAAACCAACAATCAATGAAGACGATA
TGAAGAAACTGCAAAAGTTCACTGACGATTTTGGTCAGGAGGGTTAAAAAATTGTACGGA
ATTCAACTATTTTCTATTTAAATATTATATATTGCGAGAGTAAAATGTGCATGAGAAGAA
GAACGTTGCCTATATTTAAACATACATACTTTTAGATATGATGAAAAGTTATTTCATTCA
CAATAAGCGATGATGATGATGAAGTTGATTTTACGCATACATGTCTCGTGATGAAATATG
CTATTAATATTAATATAACCCAAGAGAGAAATACAAAGTTTTATTATACAGAAAAACCGG
ATTTTTCATACCAACTCTGAAACAATATGGAATTTTTTACTTAACAGATTCAAATCACAC
AGAAAAATTAAGTAATCAAATGACTAATTTTTAATATCTTTTCTTCTCTGTTTGTTCTTA
AAAAATAATTGATGTTGCGTTTAAAAAGAAATAAAGTAAAAAAAT
>g13384.t8 Gene=g13384 Length=136
MFKIHLGNTSHVLTEENLRQLAKQTEGYSGADISIVVRDALMQPVRKVQTATHFKRIRGP
SPLDKNVMVDDLLTPCSPGEKGAIEMTWMEVEGEKLFEPPVTMGDMLNSLARTKPTINED
DMKKLQKFTDDFGQEG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g13384.t8 | Gene3D | G3DSA:1.10.8.60 | - | 1 | 115 | 0 |
| 5 | g13384.t8 | Gene3D | G3DSA:3.40.50.300 | - | 116 | 125 | 0 |
| 3 | g13384.t8 | PANTHER | PTHR23074:SF72 | VACUOLAR PROTEIN SORTING-ASSOCIATED PROTEIN 4B | 1 | 134 | 0 |
| 4 | g13384.t8 | PANTHER | PTHR23074 | AAA DOMAIN-CONTAINING | 1 | 134 | 0 |
| 2 | g13384.t8 | Pfam | PF17862 | AAA+ lid domain | 17 | 50 | 0 |
| 1 | g13384.t8 | Pfam | PF09336 | Vps4 C terminal oligomerisation domain | 73 | 133 | 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.
