Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative ATP-dependent Clp protease ATP-binding subunit clpX-like, mitochondrial.

Parent gene

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.t2 TSS g7977.t2 27435452 27435452
chr_2 g7977 g7977.t2 isoform g7977.t2 27436338 27438498
chr_2 g7977 g7977.t2 exon g7977.t2.exon1 27436338 27436398
chr_2 g7977 g7977.t2 exon g7977.t2.exon2 27436855 27437025
chr_2 g7977 g7977.t2 cds g7977.t2.CDS1 27436962 27437025
chr_2 g7977 g7977.t2 exon g7977.t2.exon3 27437719 27438498
chr_2 g7977 g7977.t2 cds g7977.t2.CDS2 27437719 27438497
chr_2 g7977 g7977.t2 TTS g7977.t2 NA NA

Sequences

>g7977.t2 Gene=g7977 Length=1012
AAAAGTCAGTCGGTCGATATTTGCGCAAATCAAATCGCACTCGGAAACACAGAGAGAGCG
ACTATTTTTTGACAAAAACAAAAAAAGTTATCTGATCACTGTGAGAGGGACATTTAGAAA
TATACAGTTCATCAAAAGGGAGTGCGAGCAGCAGACTTGAATTTAATCATGAGAGGCATA
CGAAACTCAATTAGTCTTCACAAATTTGCAACTTCTCCAAAAAATCGAACAGCGTATTTG
TGTTTAGTGGCATCACAACAGCTTCACAATAATAATAATCAGATGTGCTTAGCATCAGGC
ACTAATAACAGCAATAGTCCCGCTACAAACCTTTCACATGTTCGATACTTTCATTTAACA
CATATCTGTGATAAGTCGAATAAGGACCCAACAAATGGAAATGATAAAAACAATAATAAT
TCGACAACATCAAGTGGTTCTAATAATAACAACAATAATAAAGACAATGGCAAAGACCCG
AATAAAAAGAACACTCTTTCATGCCCAAAATGTGGCGATCCATGCACTCATGTTGAAACT
TTTGTAAATGCAACACGATTCGTCAAGTGTGAAAAATGTCATCATTTTTTTGTGGTGCTT
AGTGAGATGGACTCAAAAAAGACAGTCAAAGAAGAGTCTATTAAGGGAACAAAAAAACCA
CCGCCACCACCAAAAAAGATTATGGAATATTTGGACCGTCATGTAGTCGGTCAAGAACTC
GCCAAGAAGGTGCTATCAGTTGCAGTTTATAATCATTATAAACGCATTTACCATAATTTG
CCGCCACCATCAAATAACAATTCTACACAGTCAATTGATTCAATGGGAAGAGGCAGTGAT
TTGTTGCATATTTCTGGCATAGGGCATACAATGCTTAGTTCAGCACCTACTGAAGTGCCA
CGTCCACCTTTATCGCCACCACAGCAACATCATCCTGGATCTGAATTATTAGAAGAAAAA
AACCATACATTGAAATTAGAGAAAAGTAACATTTTAATGCTCGGACCAACAG

>g7977.t2 Gene=g7977 Length=281
MRGIRNSISLHKFATSPKNRTAYLCLVASQQLHNNNNQMCLASGTNNSNSPATNLSHVRY
FHLTHICDKSNKDPTNGNDKNNNNSTTSSGSNNNNNNKDNGKDPNKKNTLSCPKCGDPCT
HVETFVNATRFVKCEKCHHFFVVLSEMDSKKTVKEESIKGTKKPPPPPKKIMEYLDRHVV
GQELAKKVLSVAVYNHYKRIYHNLPPPSNNNSTQSIDSMGRGSDLLHISGIGHTMLSSAP
TEVPRPPLSPPQQHHPGSELLEEKNHTLKLEKSNILMLGPT

Protein features from InterProScan

Transcript Database ID Name Start End E.value
3 g7977.t2 MobiDBLite mobidb-lite consensus disorder prediction 71 104 -
4 g7977.t2 MobiDBLite mobidb-lite consensus disorder prediction 76 99 -
1 g7977.t2 PANTHER PTHR48102:SF7 ATP-DEPENDENT CLP PROTEASE ATP-BINDING SUBUNIT CLPX-LIKE, MITOCHONDRIAL 93 281 8.2E-33
2 g7977.t2 PANTHER PTHR48102 ATP-DEPENDENT CLP PROTEASE ATP-BINDING SUBUNIT CLPX-LIKE, MITOCHONDRIAL-RELATED 93 281 8.2E-33
5 g7977.t2 ProSiteProfiles PS51902 ClpX zinc binding (ZB) domain profile. 100 153 14.75

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:0008270 zinc ion binding MF
GO:0046983 protein dimerization 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.

Raw TPM values