General information for g7263.t6
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.t6 | isoform | g7263.t6 | 22462098 | 22463793 |
| chr_2 | g7263 | g7263.t6 | exon | g7263.t6.exon1 | 22462098 | 22462635 |
| chr_2 | g7263 | g7263.t6 | TTS | g7263.t6 | 22462106 | 22462106 |
| chr_2 | g7263 | g7263.t6 | cds | g7263.t6.CDS1 | 22462313 | 22462635 |
| chr_2 | g7263 | g7263.t6 | exon | g7263.t6.exon2 | 22462705 | 22462968 |
| chr_2 | g7263 | g7263.t6 | cds | g7263.t6.CDS2 | 22462705 | 22462968 |
| chr_2 | g7263 | g7263.t6 | exon | g7263.t6.exon3 | 22463059 | 22463116 |
| chr_2 | g7263 | g7263.t6 | cds | g7263.t6.CDS3 | 22463059 | 22463065 |
| chr_2 | g7263 | g7263.t6 | TSS | g7263.t6 | 22463216 | 22463216 |
| chr_2 | g7263 | g7263.t6 | exon | g7263.t6.exon4 | 22463698 | 22463793 |
Sequences
>g7263.t6 Gene=g7263 Length=956
AATTATCTTTTCTACTATTTTATATTAATGTATTATCTCTTTAATTTTATAAAGTGTTAA
TTTTGATAAAATATTCATAAAAAATAAATTAATAAGTTTTATTAGTAACAATCAAGCAAA
CTGGGTAACGACATGTCTGCGTCTGCGATGGAAAAGCATCTCTTCAATCTTAAATTTGCT
GTAAAGGATCTCGAGAGATCAGCAAAGAAATGTGATAAGGAAGAGAAGCTTGAAATCGCA
AAAACGAAAAAAGCCATTCAAAAAGGAAATCACGAAGTAGCTAGGATTCATGCAGAAAAT
GCTATTAGGCAGAAAAATCAGTCGCTAAATTATCTAAGAATGAGTGCTCGAGTTGATGCA
GTAGCTTCAAGAGTTCAAACAGCTCTCACAACTAAAAAAGTAACAAATTCAATGGCCGGT
GTCGTTAAAGCTATGGATGCAGCTATGAAAGGAATGAATTTAGAGAAAATTAGTGGTCTA
ATGGATAAATTTGAACAACAGTTTGAAGATTTGGATGTACAAAGCAGTGTTATGGAGAAC
ACAATGAACTCTACAGTCACTACTTCAGTTCCACAAAATGATGTCGATGCCTTAATGCTT
CGTGTTGCAGATGAAGCTGGTCTTGAACTTAATATGGATCTACCAAGTGCTGCAGCCTCC
ACTATTGGCACAACTGTTCAAGCTTCAACAGAACAAGATGAATTGACCGCAAGATTAGCG
AAATTACGACAAGCCGAGTAAAGGTCATTGATAAAAACACTCAATTAACGCTATATAAAA
TAACATAATATATTTATAGATACTAAGTATTTGCATTCAATATTCATTTATGATGATCAA
GAGATAAAGCTTAAAGCTATTGATTTGATTATTATAGCACTATTCAATACATTTAACCAT
AAAACTGATGTAGTTTTCCAGATCCGATATAAAAAATATATTTTTTCTTATTTTTT
>g7263.t6 Gene=g7263 Length=197
MEKHLFNLKFAVKDLERSAKKCDKEEKLEIAKTKKAIQKGNHEVARIHAENAIRQKNQSL
NYLRMSARVDAVASRVQTALTTKKVTNSMAGVVKAMDAAMKGMNLEKISGLMDKFEQQFE
DLDVQSSVMENTMNSTVTTSVPQNDVDALMLRVADEAGLELNMDLPSAAASTIGTTVQAS
TEQDELTARLAKLRQAE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g7263.t6 | Gene3D | G3DSA:1.20.1260.60 | - | 2 | 171 | 2.6e-05 |
| 2 | g7263.t6 | PANTHER | PTHR10476:SF19 | CHARGED MULTIVESICULAR BODY PROTEIN 1B-2 | 2 | 195 | 0.0e+00 |
| 3 | g7263.t6 | PANTHER | PTHR10476 | CHARGED MULTIVESICULAR BODY PROTEIN | 2 | 195 | 0.0e+00 |
| 1 | g7263.t6 | Pfam | PF03357 | Snf7 | 8 | 168 | 0.0e+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.
