General information for g7575.t4
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.t4 | TTS | g7575.t4 | 24608740 | 24608740 |
| chr_2 | g7575 | g7575.t4 | isoform | g7575.t4 | 24609592 | 24611309 |
| chr_2 | g7575 | g7575.t4 | exon | g7575.t4.exon1 | 24609592 | 24610390 |
| chr_2 | g7575 | g7575.t4 | cds | g7575.t4.CDS1 | 24610323 | 24610390 |
| chr_2 | g7575 | g7575.t4 | exon | g7575.t4.exon2 | 24610457 | 24611309 |
| chr_2 | g7575 | g7575.t4 | cds | g7575.t4.CDS2 | 24610457 | 24610985 |
| chr_2 | g7575 | g7575.t4 | TSS | g7575.t4 | 24611447 | 24611447 |
Sequences
>g7575.t4 Gene=g7575 Length=1652
ATGTCTTTTTTCAAGAATTTATTCGGCAAAAAAGAGCCTCCAGCTCCTTCGACTTCAGAG
AGTATTCAGAAATTGCGTGATACGGAAAATATGTTGTTAAAAAAACAAGAATTTTTAGAG
CAAAAGGTAGAACAAGAGCATGAAATAGCAAAAAAGAATGCTTCGACAAACAAAAGAGGT
GAGTTGTAACAATTTTTCCAAAATTTTTACCATCATTTTTCCATTTTTGATACCTCATAA
TTAATGACCTTCGAATTTTACTCAACTTAATTTGCTCTGTCTCGCTATTTTGTCTTTGTG
TTGATCATATTAACTGTGATAAAAATGAAAATGCGAAGGAAATTTTCAAAATCGCGTCAT
GATTTAGATGGAAATTGTGTTCAGACTTGTTTTAACCACTTGTTTATTCTTATTTTAGTC
GCACTACAAGCCTTAAAGAGGAAGAAGAGATACGAACAGCAATTAGAACAACTTCAGGGA
ACATTGACAACAATTGAGACTCAACGAGAGGCATTAGAGAACGCTAACACGAATGCAGCC
GTCCTCGATACAATGAAAGGAGCTTCAGATGCGCTCAAGAAAACGCATAAGGATATGAAT
ATTGATAATGTACATGATATGATGGATGACATTGCAGAACAAAATGATGTTGCAAATGAG
ATTTCAAACGCAATTTCCACTGGTATTATTTCACCTGGTGTTGATGAGGATGAGCTTGCA
AAGGAATTAGAAGAGTTGGAACAAGAAGGACTAGATTCAGAATTATTAAATGTTGGCCCG
GCGCCGAACAAACTCCCCGAAGTTCCAAGCACAGATTTACCGACAGCTTCGAAGGACAAA
GAAAAGAAAAAAGCAAAACCAGTCGCTGCAGATGAAGACGATGATCCAGATATGAAGGAA
TTAATGCAATGGGCTAATTAAAAATGCTATAAATAGAAGCTTTCGACAGCTGATGCCTCA
TATTTTTCCAAAAAAATATAATATTGAATAATAATTATTTAATCCCAAAAAACAGCAAAA
AAATTCAATGAAACATAAAAATTTTCAATAATTGTAATCTTTGTATTCTATGTTGCATCA
TCAAACATTATTTAAGGAAATAGTTGTGTTGCATATTATACAAATATTACGCTTCTTTTA
TACTTTTAACTATGCATATTCATTAAAAATTGGAATAGTTTTGTTCTATTCTTTGTGTCT
GAACTTATTTTTTTTTCTTTTCATCGTCGTGCTGCTTGAAGAAGGAAAGCGAATGTAGAG
AAATGTGATTGAGGTGAAGTGTGTTGATTATTTGATTGTGCCGGATATTCAACTATATAG
TTGTGTAGCATAACTTCAAATTTTCAACCTAATAAACCAGAAAATAAGTTAATATTAAGT
ATAACAATTTATAAAGAAGACAGAAGAAGAAATGAATAATGGTTTCGAGATTTTTTCTCT
TGAGAAAAAAATGAGTCATCGACAAAAAATAATACTAACTGAGAACATCATCAACCTATG
ACGATTTTTGTATTTTATTTTACCTGAAAAGTTTTAAATTTCATTTATTTGTTATATAGA
AGCACTTTGATGAAACAAAAGAATTATTTCTAATCAATTTGAATAAAAAGTTTAAAGAAA
TCATATTTTCTTTCTATTCATCTATTTCTTTG
>g7575.t4 Gene=g7575 Length=198
MKMRRKFSKSRHDLDGNCVQTCFNHLFILILVALQALKRKKRYEQQLEQLQGTLTTIETQ
REALENANTNAAVLDTMKGASDALKKTHKDMNIDNVHDMMDDIAEQNDVANEISNAISTG
IISPGVDEDELAKELEELEQEGLDSELLNVGPAPNKLPEVPSTDLPTASKDKEKKKAKPV
AADEDDDPDMKELMQWAN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g7575.t4 | Coils | Coil | Coil | 33 | 67 | - |
| 6 | g7575.t4 | Gene3D | G3DSA:1.10.287.1060 | - | 31 | 65 | 4.2E-12 |
| 5 | g7575.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 142 | 198 | - |
| 4 | g7575.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 166 | 185 | - |
| 2 | g7575.t4 | PANTHER | PTHR22761 | CHARGED MULTIVESICULAR BODY PROTEIN | 33 | 194 | 1.3E-56 |
| 3 | g7575.t4 | PANTHER | PTHR22761:SF14 | CHARGED MULTIVESICULAR BODY PROTEIN 4A | 33 | 194 | 1.3E-56 |
| 1 | g7575.t4 | Pfam | PF03357 | Snf7 | 33 | 164 | 1.8E-41 |
| 9 | g7575.t4 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 20 | - |
| 11 | g7575.t4 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 21 | 37 | - |
| 10 | g7575.t4 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 38 | 198 | - |
| 8 | g7575.t4 | ProSiteProfiles | PS51179 | POU-specific (POUs) domain profile. | 185 | 198 | 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.
