Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Superoxide dismutase [Cu-Zn].

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 g8507 g8507.t14 TTS g8507.t14 31066661 31066661
chr_2 g8507 g8507.t14 isoform g8507.t14 31066739 31067728
chr_2 g8507 g8507.t14 exon g8507.t14.exon1 31066739 31066864
chr_2 g8507 g8507.t14 cds g8507.t14.CDS1 31066833 31066864
chr_2 g8507 g8507.t14 exon g8507.t14.exon2 31066927 31067119
chr_2 g8507 g8507.t14 cds g8507.t14.CDS2 31066927 31067119
chr_2 g8507 g8507.t14 exon g8507.t14.exon3 31067254 31067350
chr_2 g8507 g8507.t14 cds g8507.t14.CDS3 31067254 31067343
chr_2 g8507 g8507.t14 exon g8507.t14.exon4 31067423 31067483
chr_2 g8507 g8507.t14 exon g8507.t14.exon5 31067666 31067728
chr_2 g8507 g8507.t14 TSS g8507.t14 31067822 31067822

Sequences

>g8507.t14 Gene=g8507 Length=540
ATGCCAAAAGCCGTATGCGTACTAAAAGGAGAAGTTGAAGGAACTGTCTTCTTTCAACAA
GCTTCTGATAAAGATGAAGTTCATGTCACAGGAGAAGTTAAAGGCCTAAAAGCTGGTTTG
CACGCATATTCATGAATTCGGAGACAATACAAATGGCTGCATGTCTGCTGGTGCTCATTT
TAATCCTTTTGGTAATGAACCATCACAAGTTATTTAGAAAGGTTGGAGATTTAGGAAATA
TCACTGCCGGAGATGATGGTGTTGCTAAGGTTGACATCACTGATAAAATGATTTCATTGA
GTGGTGAATTGAATATCATAGGAAGAACAGTTGTTGTTCACGCTGATCCTGATGACCTCG
GACGTGGTGGACATGATTTGTCAAAGACCACAGGAAATGCTGGTGGCAGATTAGCTTGTG
GCGTTATTGGCATTTGTAAGGAATAAACATTTAAATATATATCATGAATTTCAAAAAATA
CCTACTACAGGCTCTTCTCATACACCAAATTCCTTTTCTAATGTCACTGCAAGACTTTAA

>g8507.t14 Gene=g8507 Length=104
MNSETIQMAACLLVLILILLVMNHHKLFRKVGDLGNITAGDDGVAKVDITDKMISLSGEL
NIIGRTVVVHADPDDLGRGGHDLSKTTGNAGGRLACGVIGICKE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g8507.t14 Gene3D G3DSA:2.60.40.200 - 20 104 6.4E-31
2 g8507.t14 PANTHER PTHR10003 SUPEROXIDE DISMUTASE CU-ZN -RELATED 29 103 1.7E-30
3 g8507.t14 PANTHER PTHR10003:SF66 SUPEROXIDE DISMUTASE [CU-ZN] 29 103 1.7E-30
6 g8507.t14 PRINTS PR00068 Cu-Zn-superoxide dismutase family signature 30 39 6.7E-27
4 g8507.t14 PRINTS PR00068 Cu-Zn-superoxide dismutase family signature 49 71 6.7E-27
5 g8507.t14 PRINTS PR00068 Cu-Zn-superoxide dismutase family signature 74 100 6.7E-27
1 g8507.t14 Pfam PF00080 Copper/zinc superoxide dismutase (SODC) 28 99 6.8E-22
11 g8507.t14 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 5 -
12 g8507.t14 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 6 22 -
10 g8507.t14 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 23 104 -
14 g8507.t14 ProSitePatterns PS00332 Copper/Zinc superoxide dismutase signature 2. 88 99 -
7 g8507.t14 SUPERFAMILY SSF49329 Cu,Zn superoxide dismutase-like 23 101 1.57E-28
8 g8507.t14 SignalP_EUK SignalP-noTM SignalP-noTM 1 23 -
13 g8507.t14 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 5 22 -

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:0006801 superoxide metabolic process BP
GO:0004784 superoxide dismutase activity MF
GO:0046872 metal ion binding MF
GO:0055114 NA NA

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