General information for g7977.t20
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative ATP-dependent Clp protease ATP-binding subunit clpX-like, mitochondrial.
Parent gene
- The parent gene g7977 is located on chr_2: 27439373..27441555 (+ 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 | g7977 | g7977.t20 | isoform | g7977.t20 | 27439114 | 27439850 |
| chr_2 | g7977 | g7977.t20 | exon | g7977.t20.exon1 | 27439114 | 27439260 |
| chr_2 | g7977 | g7977.t20 | cds | g7977.t20.CDS1 | 27439126 | 27439260 |
| chr_2 | g7977 | g7977.t20 | exon | g7977.t20.exon2 | 27439360 | 27439581 |
| chr_2 | g7977 | g7977.t20 | cds | g7977.t20.CDS2 | 27439360 | 27439581 |
| chr_2 | g7977 | g7977.t20 | exon | g7977.t20.exon3 | 27439659 | 27439850 |
| chr_2 | g7977 | g7977.t20 | cds | g7977.t20.CDS3 | 27439659 | 27439850 |
| chr_2 | g7977 | g7977.t20 | TSS | g7977.t20 | NA | NA |
| chr_2 | g7977 | g7977.t20 | TTS | g7977.t20 | NA | NA |
Sequences
>g7977.t20 Gene=g7977 Length=561
TTGGGTTTTGGTATGCCGGCAACTTCATCGGAAGGTCGTCGTGCAGCTCAAGCTAGTGCA
GCGCCAATGGACAATGATCAAGCAGAACGTGACGCCAACTTGAGAAAAGTTCAAGCGAGA
GATTTAGTCGAGTTCGGAATGATACCCGAATTTGTTGGACGTTTTCCAGTTTTAGTTCCA
TTTCATTCGTTAGACATTGACATGCTAGTAAGAATATTGACCGAACCCAAGAATGCACTT
GTACAACAATATCGTGCACTTCTCGGAATGGATCAAGTGGAACTCACATTCTCATCTGAA
GCTTTAAAAGCTATCGCTAAATTGGCTATGGAACGTCAAACGGGAGCAAGAGGATTAAGA
GCTATAATGGAATCTTTGCTACTCGATCCGATGTTTGAAGTACCCGGATCTGAAATTAAA
GCTGTACATATAACAGAAGAGTGCGTGATGGGAAGTCCTGCAATTTATATTCACCGTTCG
AGTGCAACATCATCAGATCCAAACGAGACTAATAGCAGCAGTGAAGAGGAAGAAAATAGA
AAATATCGCGTAAAACAATGA
>g7977.t20 Gene=g7977 Length=182
MPATSSEGRRAAQASAAPMDNDQAERDANLRKVQARDLVEFGMIPEFVGRFPVLVPFHSL
DIDMLVRILTEPKNALVQQYRALLGMDQVELTFSSEALKAIAKLAMERQTGARGLRAIME
SLLLDPMFEVPGSEIKAVHITEECVMGSPAIYIHRSSATSSDPNETNSSSEEEENRKYRV
KQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g7977.t20 | Gene3D | G3DSA:3.40.50.300 | - | 3 | 57 | 4.4E-10 |
| 9 | g7977.t20 | Gene3D | G3DSA:1.10.8.60 | - | 59 | 160 | 7.4E-39 |
| 7 | g7977.t20 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 25 | - |
| 6 | g7977.t20 | MobiDBLite | mobidb-lite | consensus disorder prediction | 155 | 182 | - |
| 2 | g7977.t20 | PANTHER | PTHR48102:SF7 | ATP-DEPENDENT CLP PROTEASE ATP-BINDING SUBUNIT CLPX-LIKE, MITOCHONDRIAL | 16 | 175 | 8.2E-55 |
| 3 | g7977.t20 | PANTHER | PTHR48102 | ATP-DEPENDENT CLP PROTEASE ATP-BINDING SUBUNIT CLPX-LIKE, MITOCHONDRIAL-RELATED | 16 | 175 | 8.2E-55 |
| 1 | g7977.t20 | Pfam | PF10431 | C-terminal, D2-small domain, of ClpB protein | 60 | 131 | 5.4E-15 |
| 5 | g7977.t20 | SMART | SM01086 | ClpB_D2_small_2 | 60 | 153 | 3.7E-30 |
| 4 | g7977.t20 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 38 | 145 | 3.19E-18 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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.
