Gene loci information

Transcript annotation

  • This transcript has been annotated as Succinate–CoA ligase [ADP/GDP-forming] subunit alpha, 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_1 g10274 g10274.t2 TSS g10274.t2 8605526 8605526
chr_1 g10274 g10274.t2 isoform g10274.t2 8605625 8606742
chr_1 g10274 g10274.t2 exon g10274.t2.exon1 8605625 8605658
chr_1 g10274 g10274.t2 cds g10274.t2.CDS1 8605625 8605658
chr_1 g10274 g10274.t2 exon g10274.t2.exon2 8606258 8606481
chr_1 g10274 g10274.t2 cds g10274.t2.CDS2 8606258 8606481
chr_1 g10274 g10274.t2 exon g10274.t2.exon3 8606535 8606742
chr_1 g10274 g10274.t2 cds g10274.t2.CDS3 8606535 8606741
chr_1 g10274 g10274.t2 TTS g10274.t2 8607633 8607633

Sequences

>g10274.t2 Gene=g10274 Length=466
ATGGCTTCATCGAGAATGTTGTTGAAAGTGAAAGATGGTTTACAGCTGGGAAAATTCGGC
GTACGTTTTGCAAGTTATGAAGCAACGAGAAAGAATTTGAGACTTACGAAAGATACAAAA
GTAATCTGTCAAGGCTTTACCGGAAAACAGGGCACTTTCCATTCACAACAAGCTCTCGAA
TATGGAACAAAACTTATCGGAGGTGTCAGCCCAGGCAAAGGAGGCCGCACTCATTTGGAT
TTGCCAGTTTTTAATACTGTTGCTGAAGCCAGACAAGCGACTGGAGCGGAAGCAACTGTA
ATTTATGTACCACCTCCAGGCGCCGCGAAAGCCATTATGGAAGCTCTTGATGCAGAAATG
CCTTTAATTGTAGCAATCACTGAAGGAATTCCTCAACACGACATGGTGAAAGTTAAGAAT
CGTCTATTGAATCAAGATAAATCACGATTAGTTGGACCTAATTGTC

>g10274.t2 Gene=g10274 Length=155
MASSRMLLKVKDGLQLGKFGVRFASYEATRKNLRLTKDTKVICQGFTGKQGTFHSQQALE
YGTKLIGGVSPGKGGRTHLDLPVFNTVAEARQATGAEATVIYVPPPGAAKAIMEALDAEM
PLIVAITEGIPQHDMVKVKNRLLNQDKSRLVGPNC

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g10274.t2 Gene3D G3DSA:3.40.50.720 - 33 154 0
2 g10274.t2 PANTHER PTHR11117:SF2 SUCCINATE–COA LIGASE [ADP/GDP-FORMING] SUBUNIT ALPHA, MITOCHONDRIAL 21 155 0
3 g10274.t2 PANTHER PTHR11117 SUCCINYL-COA LIGASE SUBUNIT ALPHA 21 155 0
1 g10274.t2 Pfam PF02629 CoA binding domain 36 129 0
5 g10274.t2 SMART SM00881 CoA_binding_2 35 130 0
4 g10274.t2 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 26 153 0

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.

Raw TPM values