General information for g7263.t5
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Charged multivesicular body protein 1b.
Parent gene
- The parent gene g7263 is located on chr_2: 22462313..22463793 (- 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_2 | g7263 | g7263.t5 | isoform | g7263.t5 | 22462098 | 22463080 |
| chr_2 | g7263 | g7263.t5 | exon | g7263.t5.exon1 | 22462098 | 22462254 |
| chr_2 | g7263 | g7263.t5 | TTS | g7263.t5 | 22462106 | 22462106 |
| chr_2 | g7263 | g7263.t5 | exon | g7263.t5.exon2 | 22462311 | 22462635 |
| chr_2 | g7263 | g7263.t5 | cds | g7263.t5.CDS1 | 22462313 | 22462635 |
| chr_2 | g7263 | g7263.t5 | exon | g7263.t5.exon3 | 22462705 | 22462968 |
| chr_2 | g7263 | g7263.t5 | cds | g7263.t5.CDS2 | 22462705 | 22462968 |
| chr_2 | g7263 | g7263.t5 | exon | g7263.t5.exon4 | 22463059 | 22463080 |
| chr_2 | g7263 | g7263.t5 | cds | g7263.t5.CDS3 | 22463059 | 22463080 |
| chr_2 | g7263 | g7263.t5 | TSS | g7263.t5 | 22463216 | 22463216 |
Sequences
>g7263.t5 Gene=g7263 Length=768
ATGTCTGCGTCTGCGATGGAAAAGCATCTCTTCAATCTTAAATTTGCTGTAAAGGATCTC
GAGAGATCAGCAAAGAAATGTGATAAGGAAGAGAAGCTTGAAATCGCAAAAACGAAAAAA
GCCATTCAAAAAGGAAATCACGAAGTAGCTAGGATTCATGCAGAAAATGCTATTAGGCAG
AAAAATCAGTCGCTAAATTATCTAAGAATGAGTGCTCGAGTTGATGCAGTAGCTTCAAGA
GTTCAAACAGCTCTCACAACTAAAAAAGTAACAAATTCAATGGCCGGTGTCGTTAAAGCT
ATGGATGCAGCTATGAAAGGAATGAATTTAGAGAAAATTAGTGGTCTAATGGATAAATTT
GAACAACAGTTTGAAGATTTGGATGTACAAAGCAGTGTTATGGAGAACACAATGAACTCT
ACAGTCACTACTTCAGTTCCACAAAATGATGTCGATGCCTTAATGCTTCGTGTTGCAGAT
GAAGCTGGTCTTGAACTTAATATGGATCTACCAAGTGCTGCAGCCTCCACTATTGGCACA
ACTGTTCAAGCTTCAACAGAACAAGATGAATTGACCGCAAGATTAGCGAAATTACGACAA
GCCGAGTAAAGATACTAAGTATTTGCATTCAATATTCATTTATGATGATCAAGAGATAAA
GCTTAAAGCTATTGATTTGATTATTATAGCACTATTCAATACATTTAACCATAAAACTGA
TGTAGTTTTCCAGATCCGATATAAAAAATATATTTTTTCTTATTTTTT
>g7263.t5 Gene=g7263 Length=202
MSASAMEKHLFNLKFAVKDLERSAKKCDKEEKLEIAKTKKAIQKGNHEVARIHAENAIRQ
KNQSLNYLRMSARVDAVASRVQTALTTKKVTNSMAGVVKAMDAAMKGMNLEKISGLMDKF
EQQFEDLDVQSSVMENTMNSTVTTSVPQNDVDALMLRVADEAGLELNMDLPSAAASTIGT
TVQASTEQDELTARLAKLRQAE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g7263.t5 | Gene3D | G3DSA:1.20.1260.60 | - | 3 | 176 | 3e-05 |
| 2 | g7263.t5 | PANTHER | PTHR10476:SF19 | CHARGED MULTIVESICULAR BODY PROTEIN 1B-2 | 5 | 200 | 0e+00 |
| 3 | g7263.t5 | PANTHER | PTHR10476 | CHARGED MULTIVESICULAR BODY PROTEIN | 5 | 200 | 0e+00 |
| 1 | g7263.t5 | Pfam | PF03357 | Snf7 | 13 | 173 | 0e+00 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0007034 | vacuolar transport | BP |
KEGG
Orthology
- This transcript has been annotated with K12197 (charged multivesicular body protein 1)
Pathway
- This transcript belongs to the following pathways
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.
