Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Probable sulfite oxidase, mitochondrial.

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 g6540 g6540.t6 isoform g6540.t6 17552631 17553538
chr_2 g6540 g6540.t6 exon g6540.t6.exon1 17552631 17552981
chr_2 g6540 g6540.t6 cds g6540.t6.CDS1 17552633 17552981
chr_2 g6540 g6540.t6 exon g6540.t6.exon2 17553041 17553155
chr_2 g6540 g6540.t6 cds g6540.t6.CDS2 17553041 17553155
chr_2 g6540 g6540.t6 exon g6540.t6.exon3 17553272 17553438
chr_2 g6540 g6540.t6 cds g6540.t6.CDS3 17553272 17553438
chr_2 g6540 g6540.t6 exon g6540.t6.exon4 17553501 17553538
chr_2 g6540 g6540.t6 cds g6540.t6.CDS4 17553501 17553538
chr_2 g6540 g6540.t6 TSS g6540.t6 17553609 17553609
chr_2 g6540 g6540.t6 TTS g6540.t6 NA NA

Sequences

>g6540.t6 Gene=g6540 Length=671
ATGAATAGACATATACTATCTTCTAGTTTGTGTATAAGATCGTTTTTGGGAAATAGAAAT
AAAATATACCGACCTCTGTATACACTTTCTACTAGAAATTATTACAATAAATATAATAAC
ACGAATGGAGGAAGCTTTAGAGATAGCTCAAACAAGTATATTGCAGCTATAATTGGAGTT
GGTGTCTGTTACTATTTAATTGAAGATAGATTAATTTTAAAACAAGTCGATTGTGCTAAA
AAATTTGAACCACAACATGAAAAACCTCGAAGAGATTTACCAACTTATTCGGCAGAAGAA
GTATCAAAACATACAAACAGGGAAAGTGGTATTTGGGTTACATATGGCATAGGCGTGTAT
GATATAACAAATTTTATTTCTGAACATCCTGGATCAAAAAGGAATATAATGATCGGTGCT
GGTGCGGCAGTAGATCCATTTTGGCATGTTTATCAATTTCATAAGGAAGCAAAAATTTTA
AAACTGTTGGAAGAATTCAGAATCGGAAATTTAAAACCTGAAGATAGAACATCTATTGAC
AATCAGGGCAATCCTTATAGCAATGAACCTGAAAGAAATCCTGAATTTATTGTGAGATTA
GAACAACCATACAATGCCGAGCCACCTTTATCAAAATTGGTCGAGAATTTTATAACACCT
GTAGAACTTTT

>g6540.t6 Gene=g6540 Length=223
MNRHILSSSLCIRSFLGNRNKIYRPLYTLSTRNYYNKYNNTNGGSFRDSSNKYIAAIIGV
GVCYYLIEDRLILKQVDCAKKFEPQHEKPRRDLPTYSAEEVSKHTNRESGIWVTYGIGVY
DITNFISEHPGSKRNIMIGAGAAVDPFWHVYQFHKEAKILKLLEEFRIGNLKPEDRTSID
NQGNPYSNEPERNPEFIVRLEQPYNAEPPLSKLVENFITPVEL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g6540.t6 Gene3D G3DSA:3.10.120.10 Flavocytochrome B2 91 171 0.0000000
8 g6540.t6 Gene3D G3DSA:3.90.420.10 Sulfite Oxidase; Chain A 178 223 0.0000000
2 g6540.t6 PANTHER PTHR19372 SULFITE REDUCTASE 103 223 0.0000000
4 g6540.t6 PRINTS PR00363 Cytochrome B5 signature 119 129 0.0000009
3 g6540.t6 PRINTS PR00363 Cytochrome B5 signature 129 143 0.0000009
5 g6540.t6 PRINTS PR00363 Cytochrome B5 signature 159 171 0.0000009
1 g6540.t6 Pfam PF00173 Cytochrome b5-like Heme/Steroid binding domain 97 171 0.0000000
10 g6540.t6 ProSiteProfiles PS50255 Cytochrome b5 family, heme-binding domain profile. 93 172 18.4490000
7 g6540.t6 SMART SM01117 Cyt_b5_2 96 172 0.0000000
6 g6540.t6 SUPERFAMILY SSF55856 Cytochrome b5-like heme/steroid binding domain 89 188 0.0000000

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

There are no GO annotations for this transcript.

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