Gene loci information

Transcript annotation

  • This transcript has been annotated as 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.t2 TTS g6540.t2 17550619 17550619
chr_2 g6540 g6540.t2 isoform g6540.t2 17550905 17552573
chr_2 g6540 g6540.t2 exon g6540.t2.exon1 17550905 17552168
chr_2 g6540 g6540.t2 cds g6540.t2.CDS1 17551503 17552168
chr_2 g6540 g6540.t2 exon g6540.t2.exon2 17552230 17552573
chr_2 g6540 g6540.t2 cds g6540.t2.CDS2 17552230 17552430
chr_2 g6540 g6540.t2 TSS g6540.t2 NA NA

Sequences

>g6540.t2 Gene=g6540 Length=1608
TTAGAAATCATCTACCGGTACCAAATATTGATATAAAGGAATATGAACTTGAAGTTGAAA
TTGAATCAACGGGTAAAACAAAAACTTTTTCACTTAATGATTTGAAGAAAAAATTTGAAA
AGACGGGTGTTGTTGCGGTAGTAATGTGTGGCGGTAATAGAAGATCCGAAATGAATGGTG
TTAAAGAAGTTCGAGGACTTGCTTGGAGTGGTGCAGCATGCGGAAATGCAGTCTGGACTG
GTATCAGATTATGTGATTTGCTCAGTGCAATGGGAGTTAAATCAGATGAAAGCAGTCATG
TTATCTTGGAAGGATATGATCGTGATCCAACATATACACCTTATGCAACATCAATTCCTT
TATCAAAGGCAATGGATCCAAGAGGTGATGTTATTTTAGCATATGAAATGAATGGTGAGC
CTTTAACTCGAGACCATGGATTCCCTCTTAGATGCATTGTTCCCGGTGTAGTTGGTGCTA
GAAATGTCAAATGGTTAGGAAAAATTACAATTTCTAAGAATGAAGCAGAATCGCATTGGC
AGCAGGGAGATTATAAAGCATTTAGTCCAAGCACAGATTGGGATAATGTAGATTTTAAAA
CAGCACCAGCAATTCAAAACATGCCCGTTACTTCAGCAATATGCTCACCAAATCCAAATG
ATCACGAAATTAAAATTGTTGATGGTTTCATGGAAGTTAAAGGCTATGCATATTCAGGTG
GAGGAAATAAAATTATTCGAGTTGATGTTACATATGATCAGGGAAAAACATGGCATATAG
CTGATTTGCAACAGCTTTCTGATGGGGAAAATGTATCAGCCGGTCGACATTATGCATGGA
CCTTGTGGACAATTCGTGTACCAATTGAAAAAGATCAAAAATATGTTGAAGTGTGGTCAA
AAGCAGTTGATTCAAATTATAACTGTCAACCGGAAACATTTAAGAACACGTGGAATCTTC
GTGGTGTTGTTGCTAATGCTTATTCAAGAGTTGGGGTCAATCTAATTTAAGAGCATGTTT
GTATGTGTATTTATTTTTTAAGAACCTTTAATAACTATTGTAGATTTAATTTCTACATAC
AAAGCAATAAAGAATCAATCATCTGTACGTTTTTTATATTAACCGTATTCTCCTTGGATT
TGCTGCTATTCACTTTTTGTCATGCGATAAATGTGATACATGTTTAGTATTTTATTCACC
GTGTTTTCTTGTTGGTAAAGCATGACTTTCAAAAAAACTAATCTCAACAGACAAAAGAAA
TTTACACATTACTCATTACTCTTATGACACGTTCTGTCAATGTTCTAAATTAAATGCGAT
TTAAAAAATTTAATAATAATTTTATATGTGCTTGTCCTCAAAGAACCTTCAAGATTTATC
TACTAAAAAATGAACGTTTGTGGAAAATTTCAAAAAAAGAATGACGTCAATTTAATTGTG
TTCTAATAAATTGCTTAAAAAATCAAATCGATCTTAAGATCTTAAAATCATTATTTCAAT
TAGAATTTTCTTATATTTCGTCATCATCATCATCGCTTGTTTGGTTTCGTCATTATTATT
TCAGAGTAAAAAAATTTAAAAGTCGATGAGTCGATGAAAATATTCTCA

>g6540.t2 Gene=g6540 Length=288
MCGGNRRSEMNGVKEVRGLAWSGAACGNAVWTGIRLCDLLSAMGVKSDESSHVILEGYDR
DPTYTPYATSIPLSKAMDPRGDVILAYEMNGEPLTRDHGFPLRCIVPGVVGARNVKWLGK
ITISKNEAESHWQQGDYKAFSPSTDWDNVDFKTAPAIQNMPVTSAICSPNPNDHEIKIVD
GFMEVKGYAYSGGGNKIIRVDVTYDQGKTWHIADLQQLSDGENVSAGRHYAWTLWTIRVP
IEKDQKYVEVWSKAVDSNYNCQPETFKNTWNLRGVVANAYSRVGVNLI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
18 g6540.t2 Gene3D G3DSA:3.90.420.10 Sulfite Oxidase; Chain A 1 158 0
17 g6540.t2 Gene3D G3DSA:2.60.40.650 - 159 287 0
3 g6540.t2 PANTHER PTHR19372 SULFITE REDUCTASE 1 286 0
14 g6540.t2 PRINTS PR00407 Eukaryotic molybdopterin domain signature 9 21 0
13 g6540.t2 PRINTS PR00407 Eukaryotic molybdopterin domain signature 24 39 0
9 g6540.t2 PRINTS PR00407 Eukaryotic molybdopterin domain signature 78 94 0
5 g6540.t2 PRINTS PR00407 Eukaryotic molybdopterin domain signature 95 108 0
7 g6540.t2 PRINTS PR00407 Eukaryotic molybdopterin domain signature 111 124 0
4 g6540.t2 PRINTS PR00407 Eukaryotic molybdopterin domain signature 157 169 0
6 g6540.t2 PRINTS PR00407 Eukaryotic molybdopterin domain signature 185 199 0
12 g6540.t2 PRINTS PR00407 Eukaryotic molybdopterin domain signature 199 211 0
11 g6540.t2 PRINTS PR00407 Eukaryotic molybdopterin domain signature 228 238 0
8 g6540.t2 PRINTS PR00407 Eukaryotic molybdopterin domain signature 253 265 0
10 g6540.t2 PRINTS PR00407 Eukaryotic molybdopterin domain signature 268 281 0
1 g6540.t2 Pfam PF00174 Oxidoreductase molybdopterin binding domain 2 132 0
2 g6540.t2 Pfam PF03404 Mo-co oxidoreductase dimerisation domain 156 286 0
16 g6540.t2 SUPERFAMILY SSF56524 Oxidoreductase molybdopterin-binding domain 2 157 0
15 g6540.t2 SUPERFAMILY SSF81296 E set domains 160 286 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:0030151 molybdenum ion binding MF
GO:0055114 NA NA
GO:0016491 oxidoreductase activity MF

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.

Raw TPM values