Gene loci information

Transcript annotation

  • This transcript has been annotated as Voltage-dependent anion-selective channel.

Parent gene

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.t109 TSS g4858.t109 5441972 5441972
chr_2 g4858 g4858.t109 isoform g4858.t109 5441980 5443261
chr_2 g4858 g4858.t109 exon g4858.t109.exon1 5441980 5442293
chr_2 g4858 g4858.t109 cds g4858.t109.CDS1 5441980 5442293
chr_2 g4858 g4858.t109 exon g4858.t109.exon2 5442533 5442760
chr_2 g4858 g4858.t109 cds g4858.t109.CDS2 5442533 5442760
chr_2 g4858 g4858.t109 exon g4858.t109.exon3 5442898 5443093
chr_2 g4858 g4858.t109 cds g4858.t109.CDS3 5442898 5443093
chr_2 g4858 g4858.t109 exon g4858.t109.exon4 5443167 5443261
chr_2 g4858 g4858.t109 cds g4858.t109.CDS4 5443167 5443193
chr_2 g4858 g4858.t109 TTS g4858.t109 5443364 5443364

Sequences

>g4858.t109 Gene=g4858 Length=833
CCACCAGCATATTCAGATTTGGGCAAAAACGCTCGCGATGTTTTCGGCAAGGGTTACCAC
TTTGGTTTGTGGAAATTGGATGTTAAGACAAGAACAAACAGTGGCGTTGAATTCACCAGT
GCAGGACATTCAAATCAAGATACTGGAAAAGTTTTTGGTTCATTGGAGACCAAATACAAG
TTGAAGGAATACGGACTTACTTTCTCAGAAAAGTGGAACACAGATAACACTTTAACATCA
GAAGTTTCCGTTGAAGACCAACTCGTTAAGGGTCTCAAATTGAGTTTTGATGGCTCATTT
GCACCACAAACAGGAAGCAAAACAGGGCGCTTCAAGACTGCATACTCGCATGAGCGTGTT
CGATTGGATGGCGATTTCAACCTCGATTTGGGTGGTCCAATTCTTAACGCTTCAGCTGTC
GTAGACTATCAAGGATGGCTCGCTGGCTATCAATTGGCATTTGACACACAAAAGAACAAG
CTTACTGGCAACAACTTTGCACTCGGCTACAGAACTGGCGATTTCGTTTTGCATACAAAT
GTCAACGATGGTCGTGAATTTGGAGGAAGCATTTATCAACGCTGCAGCGATCGCCTCGAA
ACTGGTGTACAATTGTCATGGGCATCAGGATCGAACGCAACTAAGTTCGGTATTGCAGCC
AAGTACGATTTGGATCGAGAGACATCTGTTCGCGCTAAAGTAAATAATGCTAGTCAAATT
GGCTTGGCATTCCAACAAGTATCGTATTGTCATTGTCAACATTAATCGATGGCAAGAATT
TCAATGCTGGTGGACACAAAATTGGTGTTGCTCTTGAACTCGAAGCTTTTTAA

>g4858.t109 Gene=g4858 Length=254
PPAYSDLGKNARDVFGKGYHFGLWKLDVKTRTNSGVEFTSAGHSNQDTGKVFGSLETKYK
LKEYGLTFSEKWNTDNTLTSEVSVEDQLVKGLKLSFDGSFAPQTGSKTGRFKTAYSHERV
RLDGDFNLDLGGPILNASAVVDYQGWLAGYQLAFDTQKNKLTGNNFALGYRTGDFVLHTN
VNDGREFGGSIYQRCSDRLETGVQLSWASGSNATKFGIAAKYDLDRETSVRAKVNNASQI
GLAFQQVSYCHCQH

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g4858.t109 CDD cd07306 Porin3_VDAC 1 246 0
7 g4858.t109 Gene3D G3DSA:2.40.160.10 Porin 1 248 0
2 g4858.t109 PANTHER PTHR11743:SF12 VOLTAGE-DEPENDENT ANION-SELECTIVE CHANNEL PROTEIN 2 1 247 0
3 g4858.t109 PANTHER PTHR11743 VOLTAGE-DEPENDENT ANION-SELECTIVE CHANNEL 1 247 0
4 g4858.t109 PRINTS PR00185 Eukaryotic porin signature 2 17 0
6 g4858.t109 PRINTS PR00185 Eukaryotic porin signature 65 80 0
5 g4858.t109 PRINTS PR00185 Eukaryotic porin signature 144 155 0
1 g4858.t109 Pfam PF01459 Eukaryotic porin 1 246 0

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:0005741 mitochondrial outer membrane 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