General information for g13237.t13
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g13237 is located on chr_1: 28731877..28732519 (+ 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 | g13237 | g13237.t13 | TSS | g13237.t13 | 28731447 | 28731447 |
| chr_1 | g13237 | g13237.t13 | isoform | g13237.t13 | 28731566 | 28732519 |
| chr_1 | g13237 | g13237.t13 | exon | g13237.t13.exon1 | 28731566 | 28732519 |
| chr_1 | g13237 | g13237.t13 | cds | g13237.t13.CDS1 | 28732118 | 28732519 |
| chr_1 | g13237 | g13237.t13 | TTS | g13237.t13 | 28732729 | 28732729 |
Sequences
>g13237.t13 Gene=g13237 Length=954
AATTTTATAATTGCAAAAATTTAAGGCTGTTGACGATTATTCACTTTAATTTGAATCAAC
AAGAAAAATCAAGTGAATTTTTGGTCATGCTTTAAAGATTGATTTAAGCTAATGACGTTG
GAAAAAAATTGTTGGAATATTCTAGAAAAATAATAGAAAAGTTATCTTTGATAGTAGAAA
AAATGTTGATGTAGGTCAAGGTTTCATCAAAAACTGCTGATTGTTTTTACGTTCAAGTTC
AATGCACTTTATTTTAAATAAAACTCTTCTTTAACTTTAATTTTAGATGATTTCTAGAGT
ATCCTCTTTTTTTCGTGCTCATCCAATGTTGAAAGGTATGGCCGTTTATGCATTTATCTG
GCCAACAAGTGCAAGCATACAGCAATTGATCAATAAAGAAGAATTTGATTGGAAGAAATG
CTTTAGATTCTTTCTTTTTGGAACATTTTTTGTAGCTCCATCACTTTACGGATGGGTATA
ATATTTTTTAATTATTATCTTTTATCCATGTGACTAAAATTATTACCGTTCTAGGTTCAT
CTGTCATCGAACATGTGGAGTGAAATGACTTTAAAAACAGGGATTACAAAAGCTGTTGTT
GAACAATTTTCTTATGGACCAGCTGCAAGTGTGAGTTTTTTTACAATCATGACTTTGCTT
GAAGGACGATCATTCTCAGAAGCTAAAATGGAAGTTAGAGAGAAATTTCCTCAAACTTTT
CAAGTGGGAGTTTGTTTTTGGCCATTTTTCCAAATTATCAATTTTACGTTTATTAAAGAA
CGAAATCGTGTACCTTTCGTAGCATTTGGTAGCTTTATATGGACAATATTTCTTGCTTAC
ATGAAAACACTTGATACACAAAAATTACATGAAGTTCATGTTCAAGAACATGAACATCCT
ACACATACGTTCTTTGAAAAGCTTAAAATAAACTTGCAAATCGGTACAGAATAA
>g13237.t13 Gene=g13237 Length=133
MWSEMTLKTGITKAVVEQFSYGPAASVSFFTIMTLLEGRSFSEAKMEVREKFPQTFQVGV
CFWPFFQIINFTFIKERNRVPFVAFGSFIWTIFLAYMKTLDTQKLHEVHVQEHEHPTHTF
FEKLKINLQIGTE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g13237.t13 | PANTHER | PTHR11266 | PEROXISOMAL MEMBRANE PROTEIN 2, PXMP2 MPV17 | 1 | 104 | 2.2E-40 |
| 3 | g13237.t13 | PANTHER | PTHR11266:SF75 | IP10007P | 1 | 104 | 2.2E-40 |
| 1 | g13237.t13 | Pfam | PF04117 | Mpv17 / PMP22 family | 35 | 94 | 5.6E-19 |
| 10 | g13237.t13 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 19 | - |
| 13 | g13237.t13 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 20 | 36 | - |
| 8 | g13237.t13 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 37 | 55 | - |
| 12 | g13237.t13 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 56 | 74 | - |
| 9 | g13237.t13 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 75 | 79 | - |
| 11 | g13237.t13 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 80 | 97 | - |
| 7 | g13237.t13 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 98 | 133 | - |
| 5 | g13237.t13 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 19 | 41 | - |
| 6 | g13237.t13 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 56 | 73 | - |
| 4 | g13237.t13 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 80 | 97 | - |
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 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.
