General information for g7571.t1
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 g7571 is located on chr_2: 24603144..24609251 (+ 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 | g7571 | g7571.t1 | TSS | g7571.t1 | 24594178 | 24594178 |
| chr_2 | g7571 | g7571.t1 | isoform | g7571.t1 | 24594335 | 24603656 |
| chr_2 | g7571 | g7571.t1 | exon | g7571.t1.exon1 | 24594335 | 24594512 |
| chr_2 | g7571 | g7571.t1 | cds | g7571.t1.CDS1 | 24594335 | 24594512 |
| chr_2 | g7571 | g7571.t1 | exon | g7571.t1.exon2 | 24594578 | 24595012 |
| chr_2 | g7571 | g7571.t1 | cds | g7571.t1.CDS2 | 24594578 | 24595012 |
| chr_2 | g7571 | g7571.t1 | exon | g7571.t1.exon3 | 24603138 | 24603572 |
| chr_2 | g7571 | g7571.t1 | cds | g7571.t1.CDS3 | 24603138 | 24603572 |
| chr_2 | g7571 | g7571.t1 | exon | g7571.t1.exon4 | 24603634 | 24603656 |
| chr_2 | g7571 | g7571.t1 | cds | g7571.t1.CDS4 | 24603634 | 24603656 |
| chr_2 | g7571 | g7571.t1 | TTS | g7571.t1 | NA | NA |
Sequences
>g7571.t1 Gene=g7571 Length=1071
ATGTCTTTTTTAAAAAAATTGTTCAACAAAAAAAAGCAAACAGTTCCTTCAACATCAGAA
AGTATTCAGAAATTACATGATATGGAGAAAATACTTTTAAAGAAACAAGTATTTTTAGAG
CAAAAGTTAGAAGAGGAGCATGAAATAGCAAAAAAGAATGCTTCGACAAACAAAAGAATC
GCACTACAAGCCTTAAAGAGGAAGAAGAGATACGAACAGCAATTAGAACAACTTCAGGGA
ACATTGACAACAATTGAGACACAGCGAGAAACATTAGAGAACGCAAACACGAATGCAACC
GTCCTCGATACAATGAAAGGAGCTTCAGATGCGCTCAAGAAAACGCATAAGGATATGAAT
ATTGATAAGGTTCAAGATGTAATGGACGAAGTTGTTGAACAAAATGATGTTTCGAAGGAG
ATTTCAAACGCAATTTCATCTGCTATTGTTTCAAATATAAATGATGATGAGCTTTCTAAA
GAATTAGACGCAATTATTCAAGAGTCCATAGACTCAGAGTTATTAAATTTTGATCCTATT
CTAAACAAACCATTGCTTGATTTTCTAAGCACAGATTTACCAACAACATCAAAGAACAAG
GAAAAGCAAAAAGTCGCACTACAAGCCTTAAAGAGGAAGAAGAGATACGAACAGCAATTA
GAACAACTTCAGGGAACATTGACAACAATTGAGACACAGCGAGAAACATTAGAGAACGCT
AACACGAATGCAACCGTCCTCGATACAATGAAAGGAGCTTCAGATGCGCTCAAGAAAACG
CATAAGGATATGAATATTGATAAGGTTCAAGATGTAATGGACGAAGTTGTTGAACAGAAT
GTTGTTTCGAAGGAGATTTCAAACGCAATTTCATCTGCTATTGTTTCAAATATAAATGAT
GATGAGCTTTCTAAAGAATTAGACGCAATTATTCAAGAGTCCATAGACTCAGAGTTACTA
AATGTTGATCCTATTATGAACAAACCATTGCTCGATATTCTAGGCACAGATTTACCAACA
ACATCAAAGAACAAGGAAAAGCAAAAAGAAAATCTAATCACAAAGGTTTAG
>g7571.t1 Gene=g7571 Length=356
MSFLKKLFNKKKQTVPSTSESIQKLHDMEKILLKKQVFLEQKLEEEHEIAKKNASTNKRI
ALQALKRKKRYEQQLEQLQGTLTTIETQRETLENANTNATVLDTMKGASDALKKTHKDMN
IDKVQDVMDEVVEQNDVSKEISNAISSAIVSNINDDELSKELDAIIQESIDSELLNFDPI
LNKPLLDFLSTDLPTTSKNKEKQKVALQALKRKKRYEQQLEQLQGTLTTIETQRETLENA
NTNATVLDTMKGASDALKKTHKDMNIDKVQDVMDEVVEQNVVSKEISNAISSAIVSNIND
DELSKELDAIIQESIDSELLNVDPIMNKPLLDILGTDLPTTSKNKEKQKENLITKV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g7571.t1 | Coils | Coil | Coil | 61 | 95 | - |
| 10 | g7571.t1 | Coils | Coil | Coil | 199 | 240 | - |
| 8 | g7571.t1 | Gene3D | G3DSA:1.10.287.1060 | - | 16 | 93 | 8.3E-28 |
| 7 | g7571.t1 | Gene3D | G3DSA:1.10.287.1060 | - | 193 | 238 | 1.4E-12 |
| 4 | g7571.t1 | PANTHER | PTHR22761 | CHARGED MULTIVESICULAR BODY PROTEIN | 11 | 178 | 4.6E-100 |
| 6 | g7571.t1 | PANTHER | PTHR22761:SF14 | CHARGED MULTIVESICULAR BODY PROTEIN 4A | 11 | 178 | 4.6E-100 |
| 3 | g7571.t1 | PANTHER | PTHR22761 | CHARGED MULTIVESICULAR BODY PROTEIN | 199 | 323 | 4.6E-100 |
| 5 | g7571.t1 | PANTHER | PTHR22761:SF14 | CHARGED MULTIVESICULAR BODY PROTEIN 4A | 199 | 323 | 4.6E-100 |
| 1 | g7571.t1 | Pfam | PF03357 | Snf7 | 20 | 175 | 1.1E-40 |
| 2 | g7571.t1 | Pfam | PF03357 | Snf7 | 198 | 320 | 8.8E-34 |
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 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