General information for g7534.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g7534 is located on chr_2: 24379439..24383882 (- 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 | g7534 | g7534.t1 | isoform | g7534.t1 | 24379439 | 24380175 |
| chr_2 | g7534 | g7534.t1 | exon | g7534.t1.exon1 | 24379439 | 24379578 |
| chr_2 | g7534 | g7534.t1 | cds | g7534.t1.CDS1 | 24379439 | 24379578 |
| chr_2 | g7534 | g7534.t1 | exon | g7534.t1.exon2 | 24379636 | 24379999 |
| chr_2 | g7534 | g7534.t1 | cds | g7534.t1.CDS2 | 24379636 | 24379999 |
| chr_2 | g7534 | g7534.t1 | exon | g7534.t1.exon3 | 24380071 | 24380175 |
| chr_2 | g7534 | g7534.t1 | cds | g7534.t1.CDS3 | 24380071 | 24380175 |
| chr_2 | g7534 | g7534.t1 | TSS | g7534.t1 | 24381107 | 24381107 |
| chr_2 | g7534 | g7534.t1 | TTS | g7534.t1 | NA | NA |
Sequences
>g7534.t1 Gene=g7534 Length=609
ATGTGTGCTGAAAATTTTGATAAAATTAATGTGGTGTTAAGTAGAAATCAAAGAAATGCA
CATGAGCATCTTCTTTTAAGAAGTTTCGATGTAGTTCCTGCAAATCCGGAACCAAGTTGG
AAAGCTAGTGCGATACTTTCAAGTGGAAATTCAGATGAGGCAGAGCAGTCTGAAGGAGGA
GTTAGTGGTGAAATTACATTCAAACAATGGAATTTTAATGCACCAATTCAAGTTTATGCA
AATATTTCTGGTTTAAAACCAGGCAAGCATGCTATTCATATACATGCATTTGGCGATGTA
ACTGATGGCTGCAAATCGACTGGTCCACACTTTCGACATAGCATTGTAGGCAATGTAGAA
GCTAATGAGGAAGGAAAAGTTGACATAAAATTCAATACACTCTCATTGAGTCTTTTTGGA
TTATCAGGTGTTTTAGGTCGATCAGTTGTTGTACATGAAAAACCATCACAATTTTTAAGA
TATCCTGATATTTTCAATCCTGAGTCACAATTTGTTGACCTTGGCGTAAGCTATCAAACA
GAAGAAGATTCAGTAGGCGAACGTTTGTCATGCGGAATCATAACTATCACAAGCAACATT
TCAAACTAA
>g7534.t1 Gene=g7534 Length=202
MCAENFDKINVVLSRNQRNAHEHLLLRSFDVVPANPEPSWKASAILSSGNSDEAEQSEGG
VSGEITFKQWNFNAPIQVYANISGLKPGKHAIHIHAFGDVTDGCKSTGPHFRHSIVGNVE
ANEEGKVDIKFNTLSLSLFGLSGVLGRSVVVHEKPSQFLRYPDIFNPESQFVDLGVSYQT
EEDSVGERLSCGIITITSNISN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g7534.t1 | Gene3D | G3DSA:2.60.40.200 | - | 45 | 197 | 2.6E-30 |
| 2 | g7534.t1 | PANTHER | PTHR10003 | SUPEROXIDE DISMUTASE CU-ZN -RELATED | 58 | 200 | 3.0E-23 |
| 3 | g7534.t1 | PANTHER | PTHR10003:SF31 | SUPEROXIDE DISMUTASE [CU-ZN] 3 | 58 | 200 | 3.0E-23 |
| 5 | g7534.t1 | PRINTS | PR00068 | Cu-Zn-superoxide dismutase family signature | 91 | 113 | 4.1E-8 |
| 4 | g7534.t1 | PRINTS | PR00068 | Cu-Zn-superoxide dismutase family signature | 169 | 195 | 4.1E-8 |
| 1 | g7534.t1 | Pfam | PF00080 | Copper/zinc superoxide dismutase (SODC) | 58 | 194 | 1.5E-22 |
| 7 | g7534.t1 | ProSitePatterns | PS00087 | Copper/Zinc superoxide dismutase signature 1. | 91 | 101 | - |
| 6 | g7534.t1 | SUPERFAMILY | SSF49329 | Cu,Zn superoxide dismutase-like | 56 | 195 | 1.57E-29 |
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.
