General information for g6204.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Mpv17-like protein.
Parent gene
- The parent gene g6204 is located on chr_2: 15252527..15254636 (- 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 | g6204 | g6204.t3 | isoform | g6204.t3 | 15252084 | 15254062 |
| chr_2 | g6204 | g6204.t3 | exon | g6204.t3.exon1 | 15252084 | 15252961 |
| chr_2 | g6204 | g6204.t3 | TTS | g6204.t3 | 15252090 | 15252090 |
| chr_2 | g6204 | g6204.t3 | cds | g6204.t3.CDS1 | 15252527 | 15252961 |
| chr_2 | g6204 | g6204.t3 | exon | g6204.t3.exon2 | 15253503 | 15253544 |
| chr_2 | g6204 | g6204.t3 | cds | g6204.t3.CDS2 | 15253503 | 15253544 |
| chr_2 | g6204 | g6204.t3 | exon | g6204.t3.exon3 | 15253623 | 15253851 |
| chr_2 | g6204 | g6204.t3 | cds | g6204.t3.CDS3 | 15253623 | 15253706 |
| chr_2 | g6204 | g6204.t3 | exon | g6204.t3.exon4 | 15253923 | 15254062 |
| chr_2 | g6204 | g6204.t3 | TSS | g6204.t3 | 15254068 | 15254068 |
Sequences
>g6204.t3 Gene=g6204 Length=1289
GATTAGATGGTTCTAACGACCAGTCGTGTGTAGTTTTGTTATTTTTTTCTAAAATTATTT
ACATTCAAGCGTTAGTTGTGTGGTGTGCCTTTTTTCCCAATAATAATTCACCTCTGAACT
AAGCAGCAAAAAATTTCTGCGCAGAACAATCTCATCGCTTTAATTCATTTATTTTGCTTT
TTTGTGGAATCATGTTCATTTAGTTTACATTTATGATTAATCTATGGAATTTTGTTCAAT
TAGTTTTATTAAAGAAACTTCGACGACTTCTAAAGAAACTCAAGCATGGCGCTATTCGCT
GCTGCAAGATCATTTTTTCGGAAGCACCCGCTAATAGCCAACTGCAGTACGTATGGTCTT
CTTTATGTGGGTGCTGAATTTAGTCAACAAACTGTGACGAAGAAATTTTTGACTTCACCT
TCACAAGATATTGATAAACCAACACTAGTACGATATGCAGTAATGGGAACATTTATTTAC
TCACCAATTCTATACAATTGGTACAAATGGCTTGATGGTCGATTTCCCGGTATAGCACGC
AAGACAATTCTAAAAAAGCTAGTTCTTGATCAATTTCTTCTAACGCCTCCACTTCTCGTA
ATTTTCTATACTGGAATGTCATTGATGGAATTAAAATTTGATGATCCATTTGAAGAATGT
AGAAAAAAATTTGTAACAACTTTCCAACGCTCATGCATGTTCTGGTTGCCTGCTCAAACT
GTGAATTTCATTTTAATTCCGCCAGCATTTCGAGTTATTTACATGGGTTTTGCTAGCTTC
TGTTGGGTCAATATATTGTGCTTCCTTAAGAGACAAAAGTTGGAAGAATTTGAAGTTGCG
AACTAAATAAGAAAGCAATTTAATTTAGAATTCGCTATACAAAATTGCATAATATTTTCA
GCCATGATATTATGCTACACTTACTAATAATGCCACATGCCAAATAATAATATAAATTAG
ATACAAAATTATGAAATATTTACAAACTAACTAATTGTTGACAAATGTTAGATTTCATAA
GCGAGAAAATTGTTAAAAGTGCACTTTCAAATATTTACACACTAAAATAAATTTTATACA
CTTTTTTTATTGTTGATGCACTAGAAAAACTTTTGCTTAAAATTGCAACAAATGCACAAA
AATGCCTTTACTTTTACTCTATATAGATTCTGATTTTTATAAATCTCAATTCATTCCTTA
TGAAAAATTCTTTTTAAGTCAAAAAAGTCTATTTTTTGTAACTTTTAAAAGACATTTTGC
GAAATAAATTTTAGAATCATTTGAAATTT
>g6204.t3 Gene=g6204 Length=186
MALFAAARSFFRKHPLIANCSTYGLLYVGAEFSQQTVTKKFLTSPSQDIDKPTLVRYAVM
GTFIYSPILYNWYKWLDGRFPGIARKTILKKLVLDQFLLTPPLLVIFYTGMSLMELKFDD
PFEECRKKFVTTFQRSCMFWLPAQTVNFILIPPAFRVIYMGFASFCWVNILCFLKRQKLE
EFEVAN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g6204.t3 | PANTHER | PTHR11266:SF85 | MPV17-LIKE PROTEIN | 4 | 178 | 3.6E-76 |
| 3 | g6204.t3 | PANTHER | PTHR11266 | PEROXISOMAL MEMBRANE PROTEIN 2, PXMP2 MPV17 | 4 | 178 | 3.6E-76 |
| 1 | g6204.t3 | Pfam | PF04117 | Mpv17 / PMP22 family | 116 | 172 | 7.2E-17 |
| 11 | g6204.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 53 | - |
| 14 | g6204.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 54 | 73 | - |
| 8 | g6204.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 74 | 92 | - |
| 13 | g6204.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 93 | 111 | - |
| 10 | g6204.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 112 | 156 | - |
| 12 | g6204.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 157 | 174 | - |
| 9 | g6204.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 175 | 186 | - |
| 5 | g6204.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 16 | 38 | - |
| 6 | g6204.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 53 | 72 | - |
| 4 | g6204.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 92 | 114 | - |
| 7 | g6204.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 149 | 171 | - |
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:0016021 | integral component of membrane | CC |
KEGG
Orthology
- This transcript has been annotated with K13349 (Mpv17-like protein)
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