General information for g1441.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative PXMP2/4 family protein 2.
Parent gene
- The parent gene g1441 is located on chr_3: 10995657..10999473 (+ 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_3 | g1441 | g1441.t1 | isoform | g1441.t1 | 10990471 | 10995657 |
| chr_3 | g1441 | g1441.t1 | exon | g1441.t1.exon1 | 10990471 | 10990597 |
| chr_3 | g1441 | g1441.t1 | cds | g1441.t1.CDS1 | 10990471 | 10990597 |
| chr_3 | g1441 | g1441.t1 | exon | g1441.t1.exon2 | 10991037 | 10991106 |
| chr_3 | g1441 | g1441.t1 | cds | g1441.t1.CDS2 | 10991037 | 10991106 |
| chr_3 | g1441 | g1441.t1 | exon | g1441.t1.exon3 | 10994605 | 10994673 |
| chr_3 | g1441 | g1441.t1 | cds | g1441.t1.CDS3 | 10994605 | 10994673 |
| chr_3 | g1441 | g1441.t1 | exon | g1441.t1.exon4 | 10994730 | 10994776 |
| chr_3 | g1441 | g1441.t1 | cds | g1441.t1.CDS4 | 10994730 | 10994776 |
| chr_3 | g1441 | g1441.t1 | exon | g1441.t1.exon5 | 10994843 | 10994960 |
| chr_3 | g1441 | g1441.t1 | cds | g1441.t1.CDS5 | 10994843 | 10994960 |
| chr_3 | g1441 | g1441.t1 | exon | g1441.t1.exon6 | 10995015 | 10995135 |
| chr_3 | g1441 | g1441.t1 | cds | g1441.t1.CDS6 | 10995015 | 10995135 |
| chr_3 | g1441 | g1441.t1 | exon | g1441.t1.exon7 | 10995553 | 10995657 |
| chr_3 | g1441 | g1441.t1 | cds | g1441.t1.CDS7 | 10995553 | 10995657 |
| chr_3 | g1441 | g1441.t1 | TSS | g1441.t1 | NA | NA |
| chr_3 | g1441 | g1441.t1 | TTS | g1441.t1 | NA | NA |
Sequences
>g1441.t1 Gene=g1441 Length=657
ATGGGAGCATTGATTGAAGTCAAAGTGGACAAACAAAAGGCCAACTATCTCTTGAATACT
GCCTTAAAATTCCTTAGGAAACATAGGATTGTTAGAGGAATGCTTAGTTATAGCATTCTA
TGGCCTGTTGGATGTATGTTACAACAGACTTTTGAAGGCAAGAGTATTAGTGAATACGAT
TGGAAAAGGATTTTGAGATTTTGTATTTATGGAACGTTCATTCAAGGACCAGCTCTTTAC
TGTTGGATTCGAGTTGCTAATAAAATGTGGCCACGTAGTGATATTCGTTCACTTATAGCC
AAAGCATTCACAGAGCAATTTGCATTTGATCCATTCTCAATAACATCATTTTTGTATATT
ATGAGTGTCCTCGAGGGAAGAACTCATGAGCAAGCTAAAGATGAGGTCAAAAAATATTTT
TGCTCTTTTATTCGGCTTTTATTTTGGCCAATAGCGCAAACGATCAACTTTTCACTTATT
AAACCCAAAAATCAAGTTATTTATGCATCATTTGCTAGTCTTATCTGGACAACTTTCTTG
GCTTACATTAAGTCACATCCAATTGATGAAGAAGTTAAAAGAAGAATGAAAGCAAGAATA
AAGAAACGTTATGATAATCTGAAAGAACGTTACGAACATTTAAAAAAGCATGAATAA
>g1441.t1 Gene=g1441 Length=218
MGALIEVKVDKQKANYLLNTALKFLRKHRIVRGMLSYSILWPVGCMLQQTFEGKSISEYD
WKRILRFCIYGTFIQGPALYCWIRVANKMWPRSDIRSLIAKAFTEQFAFDPFSITSFLYI
MSVLEGRTHEQAKDEVKKYFCSFIRLLFWPIAQTINFSLIKPKNQVIYASFASLIWTTFL
AYIKSHPIDEEVKRRMKARIKKRYDNLKERYEHLKKHE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g1441.t1 | Coils | Coil | Coil | 197 | 218 | - |
| 2 | g1441.t1 | PANTHER | PTHR11266:SF26 | IP08061P | 25 | 189 | 1.6E-68 |
| 3 | g1441.t1 | PANTHER | PTHR11266 | PEROXISOMAL MEMBRANE PROTEIN 2, PXMP2 MPV17 | 25 | 189 | 1.6E-68 |
| 1 | g1441.t1 | Pfam | PF04117 | Mpv17 / PMP22 family | 122 | 180 | 1.1E-16 |
| 9 | g1441.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 29 | - |
| 12 | g1441.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 30 | 51 | - |
| 11 | g1441.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 52 | 62 | - |
| 15 | g1441.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 63 | 83 | - |
| 8 | g1441.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 84 | 138 | - |
| 13 | g1441.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 139 | 160 | - |
| 10 | g1441.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 161 | 165 | - |
| 14 | g1441.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 166 | 183 | - |
| 7 | g1441.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 184 | 218 | - |
| 4 | g1441.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 64 | 86 | - |
| 5 | g1441.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 166 | 188 | - |
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. There were no conditions that were differentially expressed