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.t1 TTS g6540.t1 17550619 17550619
chr_2 g6540 g6540.t1 isoform g6540.t1 17551503 17553538
chr_2 g6540 g6540.t1 exon g6540.t1.exon1 17551503 17552168
chr_2 g6540 g6540.t1 cds g6540.t1.CDS1 17551503 17552168
chr_2 g6540 g6540.t1 exon g6540.t1.exon2 17552230 17552573
chr_2 g6540 g6540.t1 cds g6540.t1.CDS2 17552230 17552573
chr_2 g6540 g6540.t1 exon g6540.t1.exon3 17552626 17552981
chr_2 g6540 g6540.t1 cds g6540.t1.CDS3 17552626 17552981
chr_2 g6540 g6540.t1 exon g6540.t1.exon4 17553041 17553155
chr_2 g6540 g6540.t1 cds g6540.t1.CDS4 17553041 17553155
chr_2 g6540 g6540.t1 exon g6540.t1.exon5 17553272 17553438
chr_2 g6540 g6540.t1 cds g6540.t1.CDS5 17553272 17553438
chr_2 g6540 g6540.t1 exon g6540.t1.exon6 17553501 17553538
chr_2 g6540 g6540.t1 cds g6540.t1.CDS6 17553501 17553538
chr_2 g6540 g6540.t1 TSS g6540.t1 17553609 17553609

Sequences

>g6540.t1 Gene=g6540 Length=1686
ATGAATAGACATATACTATCTTCTAGTTTGTGTATAAGATCGTTTTTGGGAAATAGAAAT
AAAATATACCGACCTCTGTATACACTTTCTACTAGAAATTATTACAATAAATATAATAAC
ACGAATGGAGGAAGCTTTAGAGATAGCTCAAACAAGTATATTGCAGCTATAATTGGAGTT
GGTGTCTGTTACTATTTAATTGAAGATAGATTAATTTTAAAACAAGTCGATTGTGCTAAA
AAATTTGAACCACAACATGAAAAACCTCGAAGAGATTTACCAACTTATTCGGCAGAAGAA
GTATCAAAACATACAAACAGGGAAAGTGGTATTTGGGTTACATATGGCATAGGCGTGTAT
GATATAACAAATTTTATTTCTGAACATCCTGGATCAAAAAGGAATATAATGATCGGTGCT
GGTGCGGCAGTAGATCCATTTTGGCATGTTTATCAATTTCATAAGGAAGCAAAAATTTTA
AAACTGTTGGAAGAATTCAGAATCGGAAATTTAAAACCTGAAGATAGAACATCTATTGAC
AATCAGGGCAATCCTTATAGCAATGAACCTGAAAGAAATCCTGAATTTATTGTGAGATTA
GAACAACCATACAATGCCGAGCCACCTTTATCAAAATTGGTCGAGAATTTTATAACACCT
GTAGAACTTTTCTATGTTAGAAATCATCTACCGGTACCAAATATTGATATAAAGGAATAT
GAACTTGAAGTTGAAATTGAATCAACGGGTAAAACAAAAACTTTTTCACTTAATGATTTG
AAGAAAAAATTTGAAAAGACGGGTGTTGTTGCGGTAGTAATGTGTGGCGGTAATAGAAGA
TCCGAAATGAATGGTGTTAAAGAAGTTCGAGGACTTGCTTGGAGTGGTGCAGCATGCGGA
AATGCAGTCTGGACTGGTATCAGATTATGTGATTTGCTCAGTGCAATGGGAGTTAAATCA
GATGAAAGCAGTCATGTTATCTTGGAAGGATATGATCGTGATCCAACATATACACCTTAT
GCAACATCAATTCCTTTATCAAAGGCAATGGATCCAAGAGGTGATGTTATTTTAGCATAT
GAAATGAATGGTGAGCCTTTAACTCGAGACCATGGATTCCCTCTTAGATGCATTGTTCCC
GGTGTAGTTGGTGCTAGAAATGTCAAATGGTTAGGAAAAATTACAATTTCTAAGAATGAA
GCAGAATCGCATTGGCAGCAGGGAGATTATAAAGCATTTAGTCCAAGCACAGATTGGGAT
AATGTAGATTTTAAAACAGCACCAGCAATTCAAAACATGCCCGTTACTTCAGCAATATGC
TCACCAAATCCAAATGATCACGAAATTAAAATTGTTGATGGTTTCATGGAAGTTAAAGGC
TATGCATATTCAGGTGGAGGAAATAAAATTATTCGAGTTGATGTTACATATGATCAGGGA
AAAACATGGCATATAGCTGATTTGCAACAGCTTTCTGATGGGGAAAATGTATCAGCCGGT
CGACATTATGCATGGACCTTGTGGACAATTCGTGTACCAATTGAAAAAGATCAAAAATAT
GTTGAAGTGTGGTCAAAAGCAGTTGATTCAAATTATAACTGTCAACCGGAAACATTTAAG
AACACGTGGAATCTTCGTGGTGTTGTTGCTAATGCTTATTCAAGAGTTGGGGTCAATCTA
ATTTAA

>g6540.t1 Gene=g6540 Length=561
MNRHILSSSLCIRSFLGNRNKIYRPLYTLSTRNYYNKYNNTNGGSFRDSSNKYIAAIIGV
GVCYYLIEDRLILKQVDCAKKFEPQHEKPRRDLPTYSAEEVSKHTNRESGIWVTYGIGVY
DITNFISEHPGSKRNIMIGAGAAVDPFWHVYQFHKEAKILKLLEEFRIGNLKPEDRTSID
NQGNPYSNEPERNPEFIVRLEQPYNAEPPLSKLVENFITPVELFYVRNHLPVPNIDIKEY
ELEVEIESTGKTKTFSLNDLKKKFEKTGVVAVVMCGGNRRSEMNGVKEVRGLAWSGAACG
NAVWTGIRLCDLLSAMGVKSDESSHVILEGYDRDPTYTPYATSIPLSKAMDPRGDVILAY
EMNGEPLTRDHGFPLRCIVPGVVGARNVKWLGKITISKNEAESHWQQGDYKAFSPSTDWD
NVDFKTAPAIQNMPVTSAICSPNPNDHEIKIVDGFMEVKGYAYSGGGNKIIRVDVTYDQG
KTWHIADLQQLSDGENVSAGRHYAWTLWTIRVPIEKDQKYVEVWSKAVDSNYNCQPETFK
NTWNLRGVVANAYSRVGVNLI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
28 g6540.t1 CDD cd02111 eukary_SO_Moco 197 558 0.0000000
27 g6540.t1 Gene3D G3DSA:3.10.120.10 Flavocytochrome B2 91 171 0.0000000
26 g6540.t1 Gene3D G3DSA:3.90.420.10 Sulfite Oxidase; Chain A 184 431 0.0000000
25 g6540.t1 Gene3D G3DSA:2.60.40.650 - 432 560 0.0000000
4 g6540.t1 PANTHER PTHR19372 SULFITE REDUCTASE 103 559 0.0000000
20 g6540.t1 PRINTS PR00363 Cytochrome B5 signature 119 129 0.0000091
19 g6540.t1 PRINTS PR00363 Cytochrome B5 signature 129 143 0.0000091
21 g6540.t1 PRINTS PR00363 Cytochrome B5 signature 159 171 0.0000091
13 g6540.t1 PRINTS PR00407 Eukaryotic molybdopterin domain signature 196 210 0.0000000
10 g6540.t1 PRINTS PR00407 Eukaryotic molybdopterin domain signature 217 233 0.0000000
9 g6540.t1 PRINTS PR00407 Eukaryotic molybdopterin domain signature 271 282 0.0000000
17 g6540.t1 PRINTS PR00407 Eukaryotic molybdopterin domain signature 282 294 0.0000000
15 g6540.t1 PRINTS PR00407 Eukaryotic molybdopterin domain signature 297 312 0.0000000
18 g6540.t1 PRINTS PR00407 Eukaryotic molybdopterin domain signature 351 367 0.0000000
11 g6540.t1 PRINTS PR00407 Eukaryotic molybdopterin domain signature 368 381 0.0000000
8 g6540.t1 PRINTS PR00407 Eukaryotic molybdopterin domain signature 384 397 0.0000000
14 g6540.t1 PRINTS PR00407 Eukaryotic molybdopterin domain signature 430 442 0.0000000
12 g6540.t1 PRINTS PR00407 Eukaryotic molybdopterin domain signature 458 472 0.0000000
7 g6540.t1 PRINTS PR00407 Eukaryotic molybdopterin domain signature 472 484 0.0000000
16 g6540.t1 PRINTS PR00407 Eukaryotic molybdopterin domain signature 501 511 0.0000000
5 g6540.t1 PRINTS PR00407 Eukaryotic molybdopterin domain signature 526 538 0.0000000
6 g6540.t1 PRINTS PR00407 Eukaryotic molybdopterin domain signature 541 554 0.0000000
2 g6540.t1 Pfam PF00173 Cytochrome b5-like Heme/Steroid binding domain 97 171 0.0000000
1 g6540.t1 Pfam PF00174 Oxidoreductase molybdopterin binding domain 229 405 0.0000000
3 g6540.t1 Pfam PF03404 Mo-co oxidoreductase dimerisation domain 429 559 0.0000000
30 g6540.t1 ProSiteProfiles PS50255 Cytochrome b5 family, heme-binding domain profile. 93 172 18.4490000
29 g6540.t1 SMART SM01117 Cyt_b5_2 96 172 0.0000000
23 g6540.t1 SUPERFAMILY SSF55856 Cytochrome b5-like heme/steroid binding domain 90 188 0.0000000
24 g6540.t1 SUPERFAMILY SSF56524 Oxidoreductase molybdopterin-binding domain 181 430 0.0000000
22 g6540.t1 SUPERFAMILY SSF81296 E set domains 433 559 0.0000000

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.

Raw TPM values