General information for g2580.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Heat shock protein 60A.
Parent gene
- The parent gene g2580 is located on chr_3: 18832218..18833669 (- 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_3 | g2580 | g2580.t3 | isoform | g2580.t3 | 18831173 | 18832282 |
| chr_3 | g2580 | g2580.t3 | exon | g2580.t3.exon1 | 18831173 | 18831573 |
| chr_3 | g2580 | g2580.t3 | TTS | g2580.t3 | 18831183 | 18831183 |
| chr_3 | g2580 | g2580.t3 | cds | g2580.t3.CDS1 | 18831548 | 18831573 |
| chr_3 | g2580 | g2580.t3 | exon | g2580.t3.exon2 | 18831650 | 18831758 |
| chr_3 | g2580 | g2580.t3 | cds | g2580.t3.CDS2 | 18831650 | 18831758 |
| chr_3 | g2580 | g2580.t3 | exon | g2580.t3.exon3 | 18831816 | 18832282 |
| chr_3 | g2580 | g2580.t3 | cds | g2580.t3.CDS3 | 18831816 | 18831965 |
| chr_3 | g2580 | g2580.t3 | TSS | g2580.t3 | NA | NA |
Sequences
>g2580.t3 Gene=g2580 Length=977
ATCAACGCGCACAACAAATTAGAGATCAAATTGCTGAAACCACATCAGAATATGAAAAGG
AAAAACTTCAAGAAAGATTAGCCAGATTGTCATCAGGTGTTGCTGTATTGAAAGTTGGTG
GATCAAGTGAAGTTGAAGTCAATGAAAAGAAAGACCGTGTTAATGATGCCCTCTGCGCTA
CTCGTGCTGCAGTTGAAGAAGGAATCGTCCCCGGTGGTGGAACTGCACTCTTGAGATGTA
TTCCAGCATTGAATGATCTTAAAGGATCAAATGCTGATCAAACTGTCGGTATTGAAATTG
TCAAAAAATCACTCCGCATGCCTTGCCTTCAAATTGCCAAAAATACAGGAGTCGATGGGT
CAGTTGTTGTCGCTAAGGTCGAAGAACAGACAGGAGATTTCGGATATGATGCATTAAATA
ACGAGTATGTGAATATGTTTGAAAAGGGTATCATTGATCCAACAAAGGTTGTCCGCACAG
CTTTAACTGATGCAGCTGGTGTTGCTTCATTACTCACAACTGCCGAATGTGTTGTATGTG
AGATTCCAAAAGAAGAACCTGCAAATCCAATGGCCGCTGCTGCAATTACAATAACAATTT
AAAATTTAAGTTTTGCATTTAAAATCATTAGTTGATAATAGTTTACTTATGTTACAAGAT
TGTGCCCAGTCAAAGAAATGAAAGTTAATTCAGAGAATGTAATATCATAGTCATAAGTTT
GATAGAAACTGATCATTAGAAAGGCACTTGTTTTTATATTGCCGAGACTGATCAAAGAAT
TATAAGAAAAAACCAATAATTTTAAATTTCTGGATTTAAATCACTCTGGCAGGTTGTGAT
TTTTATTCACAAATTTACAAAGTTTTCTCTCGTTCGTATATTAAATTAATGTACGTGATA
ATAACTAATTGTAATTTTTATGAATTTCCATTGAAATGGAAATTGAATAAAATAGAAATT
TATTACCAAAAAAGTAA
>g2580.t3 Gene=g2580 Length=94
MPCLQIAKNTGVDGSVVVAKVEEQTGDFGYDALNNEYVNMFEKGIIDPTKVVRTALTDAA
GVASLLTTAECVVCEIPKEEPANPMAAAAITITI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g2580.t3 | Gene3D | G3DSA:1.10.560.10 | GROEL | 1 | 82 | 0 |
| 2 | g2580.t3 | PANTHER | PTHR45633 | 60 KDA HEAT SHOCK PROTEIN, MITOCHONDRIAL | 1 | 80 | 0 |
| 3 | g2580.t3 | PANTHER | PTHR45633:SF3 | 60 KDA HEAT SHOCK PROTEIN, MITOCHONDRIAL | 1 | 80 | 0 |
| 1 | g2580.t3 | Pfam | PF00118 | TCP-1/cpn60 chaperonin family | 4 | 74 | 0 |
| 4 | g2580.t3 | SUPERFAMILY | SSF48592 | GroEL equatorial domain-like | 2 | 77 | 0 |
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:0005524 | ATP binding | MF |
| GO:0016887 | ATP hydrolysis activity | MF |
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.
