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.t5 TTS g6540.t5 17550619 17550619
chr_2 g6540 g6540.t5 isoform g6540.t5 17551503 17553538
chr_2 g6540 g6540.t5 exon g6540.t5.exon1 17551503 17552168
chr_2 g6540 g6540.t5 cds g6540.t5.CDS1 17551503 17552168
chr_2 g6540 g6540.t5 exon g6540.t5.exon2 17552230 17552573
chr_2 g6540 g6540.t5 cds g6540.t5.CDS2 17552230 17552573
chr_2 g6540 g6540.t5 exon g6540.t5.exon3 17552626 17552981
chr_2 g6540 g6540.t5 cds g6540.t5.CDS3 17552626 17552893
chr_2 g6540 g6540.t5 exon g6540.t5.exon4 17553041 17553155
chr_2 g6540 g6540.t5 exon g6540.t5.exon5 17553272 17553438
chr_2 g6540 g6540.t5 exon g6540.t5.exon6 17553497 17553538
chr_2 g6540 g6540.t5 TSS g6540.t5 17553609 17553609

Sequences

>g6540.t5 Gene=g6540 Length=1690
ATGAATAGACATATACTATCTTCTAGTTTGTGTATAAGGTTTATCGTTTTTGGGAAATAG
AAATAAAATATACCGACCTCTGTATACACTTTCTACTAGAAATTATTACAATAAATATAA
TAACACGAATGGAGGAAGCTTTAGAGATAGCTCAAACAAGTATATTGCAGCTATAATTGG
AGTTGGTGTCTGTTACTATTTAATTGAAGATAGATTAATTTTAAAACAAGTCGATTGTGC
TAAAAAATTTGAACCACAACATGAAAAACCTCGAAGAGATTTACCAACTTATTCGGCAGA
AGAAGTATCAAAACATACAAACAGGGAAAGTGGTATTTGGGTTACATATGGCATAGGCGT
GTATGATATAACAAATTTTATTTCTGAACATCCTGGATCAAAAAGGAATATAATGATCGG
TGCTGGTGCGGCAGTAGATCCATTTTGGCATGTTTATCAATTTCATAAGGAAGCAAAAAT
TTTAAAACTGTTGGAAGAATTCAGAATCGGAAATTTAAAACCTGAAGATAGAACATCTAT
TGACAATCAGGGCAATCCTTATAGCAATGAACCTGAAAGAAATCCTGAATTTATTGTGAG
ATTAGAACAACCATACAATGCCGAGCCACCTTTATCAAAATTGGTCGAGAATTTTATAAC
ACCTGTAGAACTTTTCTATGTTAGAAATCATCTACCGGTACCAAATATTGATATAAAGGA
ATATGAACTTGAAGTTGAAATTGAATCAACGGGTAAAACAAAAACTTTTTCACTTAATGA
TTTGAAGAAAAAATTTGAAAAGACGGGTGTTGTTGCGGTAGTAATGTGTGGCGGTAATAG
AAGATCCGAAATGAATGGTGTTAAAGAAGTTCGAGGACTTGCTTGGAGTGGTGCAGCATG
CGGAAATGCAGTCTGGACTGGTATCAGATTATGTGATTTGCTCAGTGCAATGGGAGTTAA
ATCAGATGAAAGCAGTCATGTTATCTTGGAAGGATATGATCGTGATCCAACATATACACC
TTATGCAACATCAATTCCTTTATCAAAGGCAATGGATCCAAGAGGTGATGTTATTTTAGC
ATATGAAATGAATGGTGAGCCTTTAACTCGAGACCATGGATTCCCTCTTAGATGCATTGT
TCCCGGTGTAGTTGGTGCTAGAAATGTCAAATGGTTAGGAAAAATTACAATTTCTAAGAA
TGAAGCAGAATCGCATTGGCAGCAGGGAGATTATAAAGCATTTAGTCCAAGCACAGATTG
GGATAATGTAGATTTTAAAACAGCACCAGCAATTCAAAACATGCCCGTTACTTCAGCAAT
ATGCTCACCAAATCCAAATGATCACGAAATTAAAATTGTTGATGGTTTCATGGAAGTTAA
AGGCTATGCATATTCAGGTGGAGGAAATAAAATTATTCGAGTTGATGTTACATATGATCA
GGGAAAAACATGGCATATAGCTGATTTGCAACAGCTTTCTGATGGGGAAAATGTATCAGC
CGGTCGACATTATGCATGGACCTTGTGGACAATTCGTGTACCAATTGAAAAAGATCAAAA
ATATGTTGAAGTGTGGTCAAAAGCAGTTGATTCAAATTATAACTGTCAACCGGAAACATT
TAAGAACACGTGGAATCTTCGTGGTGTTGTTGCTAATGCTTATTCAAGAGTTGGGGTCAA
TCTAATTTAA

>g6540.t5 Gene=g6540 Length=425
MIGAGAAVDPFWHVYQFHKEAKILKLLEEFRIGNLKPEDRTSIDNQGNPYSNEPERNPEF
IVRLEQPYNAEPPLSKLVENFITPVELFYVRNHLPVPNIDIKEYELEVEIESTGKTKTFS
LNDLKKKFEKTGVVAVVMCGGNRRSEMNGVKEVRGLAWSGAACGNAVWTGIRLCDLLSAM
GVKSDESSHVILEGYDRDPTYTPYATSIPLSKAMDPRGDVILAYEMNGEPLTRDHGFPLR
CIVPGVVGARNVKWLGKITISKNEAESHWQQGDYKAFSPSTDWDNVDFKTAPAIQNMPVT
SAICSPNPNDHEIKIVDGFMEVKGYAYSGGGNKIIRVDVTYDQGKTWHIADLQQLSDGEN
VSAGRHYAWTLWTIRVPIEKDQKYVEVWSKAVDSNYNCQPETFKNTWNLRGVVANAYSRV
GVNLI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
22 g6540.t5 CDD cd02111 eukary_SO_Moco 61 422 0
21 g6540.t5 Gene3D G3DSA:3.90.420.10 Sulfite Oxidase; Chain A 48 295 0
20 g6540.t5 Gene3D G3DSA:2.60.40.650 - 296 424 0
3 g6540.t5 PANTHER PTHR19372 SULFITE REDUCTASE 2 423 0
8 g6540.t5 PRINTS PR00407 Eukaryotic molybdopterin domain signature 60 74 0
6 g6540.t5 PRINTS PR00407 Eukaryotic molybdopterin domain signature 81 97 0
14 g6540.t5 PRINTS PR00407 Eukaryotic molybdopterin domain signature 135 146 0
12 g6540.t5 PRINTS PR00407 Eukaryotic molybdopterin domain signature 146 158 0
15 g6540.t5 PRINTS PR00407 Eukaryotic molybdopterin domain signature 161 176 0
9 g6540.t5 PRINTS PR00407 Eukaryotic molybdopterin domain signature 215 231 0
13 g6540.t5 PRINTS PR00407 Eukaryotic molybdopterin domain signature 232 245 0
16 g6540.t5 PRINTS PR00407 Eukaryotic molybdopterin domain signature 248 261 0
11 g6540.t5 PRINTS PR00407 Eukaryotic molybdopterin domain signature 294 306 0
10 g6540.t5 PRINTS PR00407 Eukaryotic molybdopterin domain signature 322 336 0
17 g6540.t5 PRINTS PR00407 Eukaryotic molybdopterin domain signature 336 348 0
5 g6540.t5 PRINTS PR00407 Eukaryotic molybdopterin domain signature 365 375 0
4 g6540.t5 PRINTS PR00407 Eukaryotic molybdopterin domain signature 390 402 0
7 g6540.t5 PRINTS PR00407 Eukaryotic molybdopterin domain signature 405 418 0
1 g6540.t5 Pfam PF00174 Oxidoreductase molybdopterin binding domain 93 269 0
2 g6540.t5 Pfam PF03404 Mo-co oxidoreductase dimerisation domain 293 423 0
19 g6540.t5 SUPERFAMILY SSF56524 Oxidoreductase molybdopterin-binding domain 45 294 0
18 g6540.t5 SUPERFAMILY SSF81296 E set domains 297 423 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

Pathway

  • This transcript belongs to the following pathways

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