General information for g8507.t16
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Superoxide dismutase [Cu-Zn].
Parent gene
- The parent gene g8507 is located on chr_2: 31066739..31067728 (- strand)
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.t16 | TTS | g8507.t16 | 31066661 | 31066661 |
| chr_2 | g8507 | g8507.t16 | isoform | g8507.t16 | 31066739 | 31067728 |
| chr_2 | g8507 | g8507.t16 | exon | g8507.t16.exon1 | 31066739 | 31066864 |
| chr_2 | g8507 | g8507.t16 | cds | g8507.t16.CDS1 | 31066833 | 31066864 |
| chr_2 | g8507 | g8507.t16 | exon | g8507.t16.exon2 | 31066927 | 31067106 |
| chr_2 | g8507 | g8507.t16 | cds | g8507.t16.CDS2 | 31066927 | 31067106 |
| chr_2 | g8507 | g8507.t16 | exon | g8507.t16.exon3 | 31067284 | 31067355 |
| chr_2 | g8507 | g8507.t16 | cds | g8507.t16.CDS3 | 31067284 | 31067355 |
| chr_2 | g8507 | g8507.t16 | exon | g8507.t16.exon4 | 31067423 | 31067483 |
| chr_2 | g8507 | g8507.t16 | cds | g8507.t16.CDS4 | 31067423 | 31067483 |
| chr_2 | g8507 | g8507.t16 | exon | g8507.t16.exon5 | 31067666 | 31067728 |
| chr_2 | g8507 | g8507.t16 | cds | g8507.t16.CDS5 | 31067666 | 31067728 |
| chr_2 | g8507 | g8507.t16 | TSS | g8507.t16 | 31067822 | 31067822 |
Sequences
>g8507.t16 Gene=g8507 Length=502
ATGCCAAAAGCCGTATGCGTACTAAAAGGAGAAGTTGAAGGAACTGTCTTCTTTCAACAA
GCTTCTGATAAAGATGAAGTTCATGTCACAGGAGAAGTTAAAGGCCTAAAAGCTGGTTTG
CACGGCTTCCATATTCATGAATTCGGAGACAATACAAATGGCTGCATGTCTGCTGGTGCT
CATTTTAATCCTTTTGGAAATATCACTGCCGGAGATGATGGTGTTGCTAAGGTTGACATC
ACTGATAAAATGATTTCATTGAGTGGTGAATTGAATATCATAGGAAGAACAGTTGTTGTT
CACGCTGATCCTGATGACCTCGGACGTGGTGGACATGATTTGTCAAAGACCACAGGAAAT
GCTGGTGGCAGATTAGCTTGTGGCGTTATTGGCATTTGTAAGGAATAAACATTTAAATAT
ATATCATGAATTTCAAAAAATACCTACTACAGGCTCTTCTCATACACCAAATTCCTTTTC
TAATGTCACTGCAAGACTTTAA
>g8507.t16 Gene=g8507 Length=135
MPKAVCVLKGEVEGTVFFQQASDKDEVHVTGEVKGLKAGLHGFHIHEFGDNTNGCMSAGA
HFNPFGNITAGDDGVAKVDITDKMISLSGELNIIGRTVVVHADPDDLGRGGHDLSKTTGN
AGGRLACGVIGICKE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 14 | g8507.t16 | CDD | cd00305 | Cu-Zn_Superoxide_Dismutase | 2 | 127 | 2.08359E-51 |
| 12 | g8507.t16 | Gene3D | G3DSA:2.60.40.200 | - | 3 | 66 | 1.3E-22 |
| 13 | g8507.t16 | Gene3D | G3DSA:2.60.40.200 | - | 67 | 134 | 1.9E-24 |
| 2 | g8507.t16 | PANTHER | PTHR10003 | SUPEROXIDE DISMUTASE CU-ZN -RELATED | 3 | 65 | 1.3E-51 |
| 4 | g8507.t16 | PANTHER | PTHR10003:SF66 | SUPEROXIDE DISMUTASE [CU-ZN] | 3 | 65 | 1.3E-51 |
| 3 | g8507.t16 | PANTHER | PTHR10003 | SUPEROXIDE DISMUTASE CU-ZN -RELATED | 66 | 134 | 1.3E-51 |
| 5 | g8507.t16 | PANTHER | PTHR10003:SF66 | SUPEROXIDE DISMUTASE [CU-ZN] | 66 | 134 | 1.3E-51 |
| 7 | g8507.t16 | PRINTS | PR00068 | Cu-Zn-superoxide dismutase family signature | 61 | 70 | 5.0E-25 |
| 6 | g8507.t16 | PRINTS | PR00068 | Cu-Zn-superoxide dismutase family signature | 80 | 102 | 5.0E-25 |
| 8 | g8507.t16 | PRINTS | PR00068 | Cu-Zn-superoxide dismutase family signature | 105 | 131 | 5.0E-25 |
| 1 | g8507.t16 | Pfam | PF00080 | Copper/zinc superoxide dismutase (SODC) | 10 | 130 | 8.8E-36 |
| 11 | g8507.t16 | ProSitePatterns | PS00087 | Copper/Zinc superoxide dismutase signature 1. | 42 | 52 | - |
| 10 | g8507.t16 | ProSitePatterns | PS00332 | Copper/Zinc superoxide dismutase signature 2. | 119 | 130 | - |
| 9 | g8507.t16 | SUPERFAMILY | SSF49329 | Cu,Zn superoxide dismutase-like | 4 | 132 | 2.36E-48 |
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