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.t18 isoform g4858.t18 5440473 5443261
chr_2 g4858 g4858.t18 exon g4858.t18.exon1 5440473 5440590
chr_2 g4858 g4858.t18 TSS g4858.t18 5440498 5440498
chr_2 g4858 g4858.t18 exon g4858.t18.exon2 5441973 5442293
chr_2 g4858 g4858.t18 cds g4858.t18.CDS1 5442269 5442293
chr_2 g4858 g4858.t18 exon g4858.t18.exon3 5442544 5442760
chr_2 g4858 g4858.t18 cds g4858.t18.CDS2 5442544 5442760
chr_2 g4858 g4858.t18 exon g4858.t18.exon4 5442898 5443106
chr_2 g4858 g4858.t18 cds g4858.t18.CDS3 5442898 5443106
chr_2 g4858 g4858.t18 exon g4858.t18.exon5 5443167 5443261
chr_2 g4858 g4858.t18 cds g4858.t18.CDS4 5443167 5443261
chr_2 g4858 g4858.t18 TTS g4858.t18 5443364 5443364

Sequences

>g4858.t18 Gene=g4858 Length=960
CCTGGTTTTCTCGCAAATCGAAATTTGTGAAAAGAGTTTGAAGTCGGTCGCATTTAATTG
AAATTTCATATCGTTTCCGTAATTCGCTCAGTCAGTAATTAATTAAAACTAATCCAAAAA
TGTCTCCACCAGCATATTCAGATTTGGGCAAAAACGCTCGCGATGTTTTCGGCAAGGGTT
ACCACTTTGGTTTGTGGAAATTGGATGTTAAGACAAGAACAAACAGTGGCGTTGAATTCA
CCAGTGCAGGACATTCAAATCAAGATACTGGAAAAGTTTTTGGTTCATTGGAGACCAAAT
ACAAGTTGAAGGAATACGGACTTACTTTCTCAGAAAAGTGGAACACAGATAACACTTTAA
CATCAGAAGTTTCCGTTGAAGACCAACTCGTTAAGGGTCTCAAATTGAGTTTTGATGGCT
CATTTGCACCACAAACAGGGGCGCTTCAAGACTGCATACTCGCATGAGCGTGTTCGATTG
GATGGCGATTTCAACCTCGATTTGGGTGGTCCAATTCTTAACGCTTCAGCTGTCGTAGAC
TATCAAGGATGGCTCGCTGGCTATCAATTGGCATTTGACACACAAAAGAACAAGCTTACT
GGCAACAACTTTGCACTCGGCTACAGAACTGGCGATTTCGTTTTGCATACAAATGTCAAC
GATGGTCGTGAATTTGGAGGAAGCATTTATCAACGCTGCAGCGATCGCCTCGAAACTGGT
GTACAATTGTCATGGGCATCAGGATCGAACGCAACTAAGTTCGGTATTGCAGCCAAGTAC
GATTTGGATCGAGAGACATCTGTTCGCGCTAAAGTAAATAATGCTAGTCAAATTGGCTTG
GCATTCCAACAAAGATTGCGCGAAGGTATCGTATTGTCATTGTCAACATTAATCGATGGC
AAGAATTTCAATGCTGGTGGACACAAAATTGGTGTTGCTCTTGAACTCGAAGCTTTTTAA

>g4858.t18 Gene=g4858 Length=181
MAHLHHKQGRFKTAYSHERVRLDGDFNLDLGGPILNASAVVDYQGWLAGYQLAFDTQKNK
LTGNNFALGYRTGDFVLHTNVNDGREFGGSIYQRCSDRLETGVQLSWASGSNATKFGIAA
KYDLDRETSVRAKVNNASQIGLAFQQRLREGIVLSLSTLIDGKNFNAGGHKIGVALELEA
F

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g4858.t18 CDD cd07306 Porin3_VDAC 3 179 0
6 g4858.t18 Gene3D G3DSA:2.40.160.10 Porin 2 181 0
2 g4858.t18 PANTHER PTHR11743:SF28 VOLTAGE-DEPENDENT ANION-SELECTIVE CHANNEL PROTEIN 3 6 180 0
3 g4858.t18 PANTHER PTHR11743 VOLTAGE-DEPENDENT ANION-SELECTIVE CHANNEL 6 180 0
4 g4858.t18 PRINTS PR00185 Eukaryotic porin signature 44 55 0
5 g4858.t18 PRINTS PR00185 Eukaryotic porin signature 144 161 0
1 g4858.t18 Pfam PF01459 Eukaryotic porin 5 173 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: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