General information for g11024.t8
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Charged multivesicular body protein 5.
Parent gene
- The parent gene g11024 is located on chr_1: 13460461..13461313 (- 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 | g11024 | g11024.t8 | TTS | g11024.t8 | 13460240 | 13460240 |
| chr_1 | g11024 | g11024.t8 | isoform | g11024.t8 | 13460461 | 13461313 |
| chr_1 | g11024 | g11024.t8 | exon | g11024.t8.exon1 | 13460461 | 13460938 |
| chr_1 | g11024 | g11024.t8 | cds | g11024.t8.CDS1 | 13460461 | 13460938 |
| chr_1 | g11024 | g11024.t8 | exon | g11024.t8.exon2 | 13461028 | 13461182 |
| chr_1 | g11024 | g11024.t8 | cds | g11024.t8.CDS2 | 13461028 | 13461182 |
| chr_1 | g11024 | g11024.t8 | exon | g11024.t8.exon3 | 13461245 | 13461313 |
| chr_1 | g11024 | g11024.t8 | cds | g11024.t8.CDS3 | 13461245 | 13461313 |
| chr_1 | g11024 | g11024.t8 | TSS | g11024.t8 | 13461386 | 13461386 |
Sequences
>g11024.t8 Gene=g11024 Length=702
ATGAATCGCTTATTTGGAAGAGGTAAACCAAAAGAACCACCACCAGACCTCAATGAATGC
ATTGGAAAAAAGGTGGATTCTCGAGCTGAAGGAATTGAAAAGAAAATTCAAATTCTAGAC
AATGAATTGCGTAAATACAAAGATCAAATGGCTAAAATGAGAGAAGGACCGAGCAAGAAT
GCAGTGAAACAGAAAGCTCTTCGTGTTTTAAAGCAAAAGAAACAATATGAGCAGCAAGTT
GAAAGTTTAAGAAATCAGTCATTCAATATGGAACAAGCTAATTATGCGAATCAGATGATG
AAAGATACTCAAGCAACTGTTGTCGCAATGAAAGATGGAATGAAATCTATGAAAAAAGAA
TTTAAGAAGATTAACATTGAAGATATTGAAGATCTTCAAGATGACATGGCTGATATGCTT
GAACAAGCAGATGAAGTCCAAGAAGCTCTTGGAAGAAATTACAACATGCCTGAAATTGAT
GAAGATGATCTGCAAGCAGAACTCGATGCATTGGGTGATGAAATTGCATTGGACGATGAT
AGTAGTTATTTGGATGATGTTATTAAAGCACCAGGTATTCCAGACAAAGAACCTGGAGCT
GATAGCGTCGTTGCACCGCCTTCAAAAACAAAGGATGGAATTTTAGTCGATGAATTTGGT
TTACCACAACTACCTGCAGCTTCATCATCTAAACAAAACTAA
>g11024.t8 Gene=g11024 Length=233
MNRLFGRGKPKEPPPDLNECIGKKVDSRAEGIEKKIQILDNELRKYKDQMAKMREGPSKN
AVKQKALRVLKQKKQYEQQVESLRNQSFNMEQANYANQMMKDTQATVVAMKDGMKSMKKE
FKKINIEDIEDLQDDMADMLEQADEVQEALGRNYNMPEIDEDDLQAELDALGDEIALDDD
SSYLDDVIKAPGIPDKEPGADSVVAPPSKTKDGILVDEFGLPQLPAASSSKQN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g11024.t8 | Coils | Coil | Coil | 29 | 56 | - |
| 8 | g11024.t8 | Coils | Coil | Coil | 59 | 93 | - |
| 6 | g11024.t8 | Coils | Coil | Coil | 129 | 149 | - |
| 5 | g11024.t8 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 23 | - |
| 4 | g11024.t8 | MobiDBLite | mobidb-lite | consensus disorder prediction | 191 | 211 | - |
| 2 | g11024.t8 | PANTHER | PTHR22761 | CHARGED MULTIVESICULAR BODY PROTEIN | 1 | 224 | 3.1E-81 |
| 3 | g11024.t8 | PANTHER | PTHR22761:SF69 | CHARGED MULTIVESICULAR BODY PROTEIN 5 | 1 | 224 | 3.1E-81 |
| 1 | g11024.t8 | Pfam | PF03357 | Snf7 | 12 | 197 | 1.7E-47 |
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 K12198 (charged multivesicular body protein 5)
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. There were no conditions that were differentially expressed