General information for g8507.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 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.t1 | TTS | g8507.t1 | 31066661 | 31066661 |
| chr_2 | g8507 | g8507.t1 | isoform | g8507.t1 | 31066739 | 31067728 |
| chr_2 | g8507 | g8507.t1 | exon | g8507.t1.exon1 | 31066739 | 31066788 |
| chr_2 | g8507 | g8507.t1 | cds | g8507.t1.CDS1 | 31066739 | 31066788 |
| chr_2 | g8507 | g8507.t1 | exon | g8507.t1.exon2 | 31066844 | 31066864 |
| chr_2 | g8507 | g8507.t1 | cds | g8507.t1.CDS2 | 31066844 | 31066864 |
| chr_2 | g8507 | g8507.t1 | exon | g8507.t1.exon3 | 31066927 | 31067119 |
| chr_2 | g8507 | g8507.t1 | cds | g8507.t1.CDS3 | 31066927 | 31067119 |
| chr_2 | g8507 | g8507.t1 | exon | g8507.t1.exon4 | 31067181 | 31067218 |
| chr_2 | g8507 | g8507.t1 | cds | g8507.t1.CDS4 | 31067181 | 31067218 |
| chr_2 | g8507 | g8507.t1 | exon | g8507.t1.exon5 | 31067284 | 31067355 |
| chr_2 | g8507 | g8507.t1 | cds | g8507.t1.CDS5 | 31067284 | 31067355 |
| chr_2 | g8507 | g8507.t1 | exon | g8507.t1.exon6 | 31067423 | 31067483 |
| chr_2 | g8507 | g8507.t1 | cds | g8507.t1.CDS6 | 31067423 | 31067483 |
| chr_2 | g8507 | g8507.t1 | exon | g8507.t1.exon7 | 31067666 | 31067728 |
| chr_2 | g8507 | g8507.t1 | cds | g8507.t1.CDS7 | 31067666 | 31067728 |
| chr_2 | g8507 | g8507.t1 | TSS | g8507.t1 | 31067822 | 31067822 |
Sequences
>g8507.t1 Gene=g8507 Length=498
ATGCCAAAAGCCGTATGCGTACTAAAAGGAGAAGTTGAAGGAACTGTCTTCTTTCAACAA
GCTTCTGATAAAGATGAAGTTCATGTCACAGGAGAAGTTAAAGGCCTAAAAGCTGGTTTG
CACGGCTTCCATATTCATGAATTCGGAGACAATACAAATGGCTGCATGTCTGCTGGTGCT
CATTTTAATCCTTTTGGAAAAGACCATGCCGCTCCGACTGATGCTGATCGTCATGTTGGA
GATTTAGGAAATATCACTGCCGGAGATGATGGTGTTGCTAAGGTTGACATCACTGATAAA
ATGATTTCATTGAGTGGTGAATTGAATATCATAGGAAGAACAGTTGTTGTTCACGCTGAT
CCTGATGACCTCGGACGTGGTGGACATGATTTGTCAAAGACCACAGGAAATGCTGGTGGC
AGATTAGCTTGTGGCGTTATTGGCATTTGCTCTTCTCATACACCAAATTCCTTTTCTAAT
GTCACTGCAAGACTTTAA
>g8507.t1 Gene=g8507 Length=165
MPKAVCVLKGEVEGTVFFQQASDKDEVHVTGEVKGLKAGLHGFHIHEFGDNTNGCMSAGA
HFNPFGKDHAAPTDADRHVGDLGNITAGDDGVAKVDITDKMISLSGELNIIGRTVVVHAD
PDDLGRGGHDLSKTTGNAGGRLACGVIGICSSHTPNSFSNVTARL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g8507.t1 | CDD | cd00305 | Cu-Zn_Superoxide_Dismutase | 2 | 144 | 6.47784E-64 |
| 11 | g8507.t1 | Gene3D | G3DSA:2.60.40.200 | - | 1 | 159 | 3.6E-63 |
| 2 | g8507.t1 | PANTHER | PTHR10003 | SUPEROXIDE DISMUTASE CU-ZN -RELATED | 3 | 151 | 2.4E-67 |
| 3 | g8507.t1 | PANTHER | PTHR10003:SF66 | SUPEROXIDE DISMUTASE [CU-ZN] | 3 | 151 | 2.4E-67 |
| 5 | g8507.t1 | PRINTS | PR00068 | Cu-Zn-superoxide dismutase family signature | 42 | 64 | 1.5E-43 |
| 7 | g8507.t1 | PRINTS | PR00068 | Cu-Zn-superoxide dismutase family signature | 78 | 87 | 1.5E-43 |
| 4 | g8507.t1 | PRINTS | PR00068 | Cu-Zn-superoxide dismutase family signature | 97 | 119 | 1.5E-43 |
| 6 | g8507.t1 | PRINTS | PR00068 | Cu-Zn-superoxide dismutase family signature | 122 | 148 | 1.5E-43 |
| 1 | g8507.t1 | Pfam | PF00080 | Copper/zinc superoxide dismutase (SODC) | 10 | 147 | 2.7E-50 |
| 10 | g8507.t1 | ProSitePatterns | PS00087 | Copper/Zinc superoxide dismutase signature 1. | 42 | 52 | - |
| 9 | g8507.t1 | ProSitePatterns | PS00332 | Copper/Zinc superoxide dismutase signature 2. | 136 | 147 | - |
| 8 | g8507.t1 | SUPERFAMILY | SSF49329 | Cu,Zn superoxide dismutase-like | 4 | 150 | 2.75E-58 |
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 transcript has been annotated with K04565 (superoxide dismutase, Cu-Zn family)
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.
