General information for g4858.t59
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Voltage-dependent anion-selective channel.
Parent gene
- The parent gene g4858 is located on chr_2: 5442898..5451158 (+ 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 | g4858 | g4858.t59 | TSS | g4858.t59 | 5440498 | 5440498 |
| chr_2 | g4858 | g4858.t59 | isoform | g4858.t59 | 5440504 | 5443581 |
| chr_2 | g4858 | g4858.t59 | exon | g4858.t59.exon1 | 5440504 | 5440590 |
| chr_2 | g4858 | g4858.t59 | exon | g4858.t59.exon2 | 5441973 | 5442250 |
| chr_2 | g4858 | g4858.t59 | cds | g4858.t59.CDS1 | 5441974 | 5442250 |
| chr_2 | g4858 | g4858.t59 | exon | g4858.t59.exon3 | 5442533 | 5442760 |
| chr_2 | g4858 | g4858.t59 | cds | g4858.t59.CDS2 | 5442533 | 5442642 |
| chr_2 | g4858 | g4858.t59 | exon | g4858.t59.exon4 | 5442898 | 5443091 |
| chr_2 | g4858 | g4858.t59 | exon | g4858.t59.exon5 | 5443167 | 5443581 |
| chr_2 | g4858 | g4858.t59 | TTS | g4858.t59 | NA | NA |
Sequences
>g4858.t59 Gene=g4858 Length=1202
AAGAGTTTGAAGTCGGTCGCATTTAATTGAAATTTCATATCGTTTCCGTAATTCGCTCAG
TCAGTAATTAATTAAAACTAATCCAAAAATGTCTCCACCAGCATATTCAGATTTGGGCAA
AAACGCTCGCGATGTTTTCGGCAAGGGTTACCACTTTGGTTTGTGGAAATTGGATGTTAA
GACAAGAACAAACAGTGGCGTTGAATTCACCAGTGCAGGACATTCAAATCAAGATACTGG
AAAAGTTTTTGGTTCATTGGAGACCAAATACAAGTTGAAGGAATACGGACTTACTTTCTC
AGAAAAGTGGAACACAGATAACACTTTAACATCAGAAGTTTCCGTTGAAGACCAACTCGT
TAAGGAAGCAAAACAGGGCGCTTCAAGACTGCATACTCGCATGAGCGTGTTCGATTGGAT
GGCGATTTCAACCTCGATTTGGGTGGTCCAATTCTTAACGCTTCAGCTGTCGTAGACTAT
CAAGGATGGCTCGCTGGCTATCAATTGGCATTTGACACACAAAAGAACAAGCTTACTGGC
AACAACTTTGCACTCGGCTACAGAACTGGCGATTTCGTTTTGCATACAAATGTCAACGAT
GGTCGTGAATTTGGAGGAAGCATTTATCAACGCTGCAGCGATCGCCTCGAAACTGGTGTA
CAATTGTCATGGGCATCAGGATCGAACGCAACTAAGTTCGGTATTGCAGCCAAGTACGAT
TTGGATCGAGAGACATCTGTTCGCGCTAAAGTAAATAATGCTAGTCAAATTGGCTTGGCA
TTCCAACGTATCGTATTGTCATTGTCAACATTAATCGATGGCAAGAATTTCAATGCTGGT
GGACACAAAATTGGTGTTGCTCTTGAACTCGAAGCTTTTTAAATCTCTTCGTGTATAAAT
ATTTCAAAGTAACACATTGCCGCATTGTTGTTCAAAGAAAAAAAAAGTTTAAAATGAGAT
AAAATAAAAATTGAGGAAATCACACAAAAATGAGAAATTTTAAGAATTAATAAAATCAGT
AATTAATAGTGAAAAGGACACAATATAAGCAGCGATATTTGAAATTCCCCCATTCTCTAA
CTTTCCCTCAGTTTAAGTAAAACTTAAAAACACAAAAAGAAAAGCATAGAATGTATGTTA
GAAGAAGTTTCAATAAATGAGACATCAATAAAGGCTTTAAAAATGTTCCATCAAAAATAT
TT
>g4858.t59 Gene=g4858 Length=128
MSPPAYSDLGKNARDVFGKGYHFGLWKLDVKTRTNSGVEFTSAGHSNQDTGKVFGSLETK
YKLKEYGLTFSEKWNTDNTLTSEVSVEDQLVKEAKQGASRLHTRMSVFDWMAISTSIWVV
QFLTLQLS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g4858.t59 | CDD | cd07306 | Porin3_VDAC | 3 | 95 | 3.00255E-42 |
| 6 | g4858.t59 | Gene3D | G3DSA:2.40.160.10 | Porin | 1 | 104 | 5.8E-43 |
| 2 | g4858.t59 | PANTHER | PTHR11743:SF28 | VOLTAGE-DEPENDENT ANION-SELECTIVE CHANNEL PROTEIN 3 | 2 | 97 | 4.1E-36 |
| 3 | g4858.t59 | PANTHER | PTHR11743 | VOLTAGE-DEPENDENT ANION-SELECTIVE CHANNEL | 2 | 97 | 4.1E-36 |
| 5 | g4858.t59 | PRINTS | PR00185 | Eukaryotic porin signature | 4 | 19 | 1.0E-11 |
| 4 | g4858.t59 | PRINTS | PR00185 | Eukaryotic porin signature | 67 | 82 | 1.0E-11 |
| 1 | g4858.t59 | Pfam | PF01459 | Eukaryotic porin | 3 | 95 | 1.4E-27 |
| 7 | g4858.t59 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 106 | - |
| 9 | g4858.t59 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 107 | 127 | - |
| 8 | g4858.t59 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 128 | 128 | - |
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:0055085 | transmembrane transport | BP |
| GO:0008308 | voltage-gated anion channel activity | MF |
| GO:1902017 | regulation of cilium assembly | BP |
| GO:0005741 | mitochondrial outer membrane | CC |
| GO:0005739 | mitochondrion | CC |
| GO:0098656 | anion transmembrane 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