General information for g7575.t7
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Charged multivesicular body protein 4a.
Parent gene
- The parent gene g7575 is located on chr_2: 24611131..24611309 (- 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 | g7575 | g7575.t7 | TTS | g7575.t7 | 24610208 | 24610208 |
| chr_2 | g7575 | g7575.t7 | isoform | g7575.t7 | 24610323 | 24611309 |
| chr_2 | g7575 | g7575.t7 | exon | g7575.t7.exon1 | 24610323 | 24610390 |
| chr_2 | g7575 | g7575.t7 | cds | g7575.t7.CDS1 | 24610323 | 24610390 |
| chr_2 | g7575 | g7575.t7 | exon | g7575.t7.exon2 | 24610457 | 24610891 |
| chr_2 | g7575 | g7575.t7 | cds | g7575.t7.CDS2 | 24610457 | 24610891 |
| chr_2 | g7575 | g7575.t7 | exon | g7575.t7.exon3 | 24611125 | 24611309 |
| chr_2 | g7575 | g7575.t7 | cds | g7575.t7.CDS3 | 24611125 | 24611152 |
| chr_2 | g7575 | g7575.t7 | TSS | g7575.t7 | 24611447 | 24611447 |
Sequences
>g7575.t7 Gene=g7575 Length=688
ATGTCTTTTTTCAAGAATTTATTCGGCAAAAAAGAGCCTCCAGCTCCTTCGACTTCAGAG
AGTATTCAGAAATTGCGTGATACGGAAAATATGTTGTTAAAAAAACAAGAATTTTTAGAG
CAAAAGGTAGAACAAGAGCATGAAATAGCAAAAAAGAATGCTTCGACAAACAAAAGAGGT
GAGTTTCGCACTACAAGCCTTAAAGAGGAAGAAGAGATACGAACAGCAATTAGAACAACT
TCAGGGAACATTGACAACAATTGAGACTCAACGAGAGGCATTAGAGAACGCTAACACGAA
TGCAGCCGTCCTCGATACAATGAAAGGAGCTTCAGATGCGCTCAAGAAAACGCATAAGGA
TATGAATATTGATAATGTACATGATATGATGGATGACATTGCAGAACAAAATGATGTTGC
AAATGAGATTTCAAACGCAATTTCCACTGGTATTATTTCACCTGGTGTTGATGAGGATGA
GCTTGCAAAGGAATTAGAAGAGTTGGAACAAGAAGGACTAGATTCAGAATTATTAAATGT
TGGCCCGGCGCCGAACAAACTCCCCGAAGTTCCAAGCACAGATTTACCGACAGCTTCGAA
GGACAAAGAAAAGAAAAAAGCAAAACCAGTCGCTGCAGATGAAGACGATGATCCAGATAT
GAAGGAATTAATGCAATGGGCTAATTAA
>g7575.t7 Gene=g7575 Length=176
MLRQTKEVSFALQALKRKKRYEQQLEQLQGTLTTIETQREALENANTNAAVLDTMKGASD
ALKKTHKDMNIDNVHDMMDDIAEQNDVANEISNAISTGIISPGVDEDELAKELEELEQEG
LDSELLNVGPAPNKLPEVPSTDLPTASKDKEKKKAKPVAADEDDDPDMKELMQWAN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g7575.t7 | Coils | Coil | Coil | 11 | 45 | - |
| 6 | g7575.t7 | Gene3D | G3DSA:1.10.287.1060 | - | 3 | 43 | 7.8E-13 |
| 5 | g7575.t7 | MobiDBLite | mobidb-lite | consensus disorder prediction | 121 | 176 | - |
| 4 | g7575.t7 | MobiDBLite | mobidb-lite | consensus disorder prediction | 144 | 163 | - |
| 2 | g7575.t7 | PANTHER | PTHR22761 | CHARGED MULTIVESICULAR BODY PROTEIN | 6 | 172 | 9.3E-57 |
| 3 | g7575.t7 | PANTHER | PTHR22761:SF14 | CHARGED MULTIVESICULAR BODY PROTEIN 4A | 6 | 172 | 9.3E-57 |
| 1 | g7575.t7 | Pfam | PF03357 | Snf7 | 3 | 142 | 6.4E-42 |
| 8 | g7575.t7 | ProSiteProfiles | PS51179 | POU-specific (POUs) domain profile. | 163 | 176 | 8.758 |
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:0006355 | regulation of transcription, DNA-templated | BP |
| GO:0007034 | vacuolar transport | BP |
| GO:0003700 | DNA-binding transcription factor activity | MF |
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