Gene loci information

Transcript annotation

  • This transcript has been annotated as Dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex, 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_3 g635 g635.t11 TSS g635.t11 4679520 4679520
chr_3 g635 g635.t11 isoform g635.t11 4679597 4682657
chr_3 g635 g635.t11 exon g635.t11.exon1 4679597 4679662
chr_3 g635 g635.t11 cds g635.t11.CDS1 4679597 4679662
chr_3 g635 g635.t11 exon g635.t11.exon2 4679983 4680068
chr_3 g635 g635.t11 cds g635.t11.CDS2 4679983 4680068
chr_3 g635 g635.t11 exon g635.t11.exon3 4680142 4680255
chr_3 g635 g635.t11 cds g635.t11.CDS3 4680142 4680255
chr_3 g635 g635.t11 exon g635.t11.exon4 4680321 4680606
chr_3 g635 g635.t11 cds g635.t11.CDS4 4680321 4680606
chr_3 g635 g635.t11 exon g635.t11.exon5 4681640 4682071
chr_3 g635 g635.t11 cds g635.t11.CDS5 4681640 4682071
chr_3 g635 g635.t11 exon g635.t11.exon6 4682134 4682439
chr_3 g635 g635.t11 cds g635.t11.CDS6 4682134 4682439
chr_3 g635 g635.t11 exon g635.t11.exon7 4682523 4682657
chr_3 g635 g635.t11 cds g635.t11.CDS7 4682523 4682657
chr_3 g635 g635.t11 TTS g635.t11 4683211 4683211

Sequences

>g635.t11 Gene=g635 Length=1425
ATGATTCGATCACTTTCCTCATTTCCACGAAGTGTTGTTCTTCGCATAAGCAATAGAAGT
AATCAGATCCAGCAAACGTTGAGGAATAATATTCATCAACAATGTGCCGTTCAAAAGTTG
GTGCTTACATGCGACACAAATTCTCAAAATTCATTAGTTATGCAGCAACAACATGTTAGA
TTAATTCAAACAACTACGCAACTTCTTAATTCTGAAATCGTTAAGGTGCCACCATTTGCC
GATTCTGTATCAGAAGGTGATGTAAAATTTGATAAGAAAGTAGGTGATGCAGTTGCAGCT
GATGAGGTTGTTATGGAAATTGAAACCGATAAGACAACAGTTGGTGTTCCAGCTCCATCG
CATGGTATCATTGAGGAAATTTTTGTTTCAGACGGTGATACAGTAAAGGCTGGACAACAG
TTGTTCAAAATGAAGTTTACAGATGCCGCACCAGAAAAAGAAGCATCAACTTCCACGCCA
GAACCTCCAAAAGCAGCTGCTGCACCTTCACCACCACCACCACAACCTAAACAAGAAGCA
CCAAAAGCTGCTCCTCAACCACAAGCAGCACCACCACCTGCTGCATCAACACCTCCACCA
CCGCCTCCAAAACCAGCAGCACCAGCAAAAACCGTTCCAATTGCTGCCATTCGACATGCA
CAAGCTATCGATGCTGCCACAGTTAAAGTACCTCCAGCTGATTATACAAAAGAAATCACT
GGCACACGCACGGAACAGCGTGTAAAAATGAATCGAATGCGTCTAAAGATTGCATCACGT
TTGAAGGAAGCACAAAATGTCAATGCAATGTTAACAACATTCAATGAAATTGATATGAGT
GCAATCATGGAATTCCGCAAGTTGCATCAAGAAACCTTCCAAAAGCGTTATGGAATTAAA
TTAGGATTTATGTCAGCTTTCTGTAAAGCTGCTGCTTATGCTCTTCAAGATCAACCAGTT
GTTAATGCTGTTATTGAAGATAATGAAATTGTTTATCGTGATTATGTTGATATTTCGGTT
GCTGTTGCATCACCAAAAGGTTTAGTTGTGCCAGTTTTGCGTAATGTAGAATCAATGAAT
TATGCTGAAATTGAATTGGGTATCAATGCTTTGGGCGAGAAAGCTCGTAATGGAACATTA
GCTGTTGAAGATATGGACGGTGGTACTTTTACAATCAGTAATGGAGGCGTATTTGGTTCA
CTAATGGGTACTCCAATTATTAATCCACCACAAAGTGCTATTCTCGGTATGCACGCAACA
TTTGAGCGACCAGTGGCTATCAAAGGACAAGTCGTTATTCGTCCCATGATGTACATCGCA
CTTACGTATGATCATCGTTTGATTGATGGACGTGAGGCTGTGACTTTCTTGCGTAAAATC
AAAGCAGGTGTCGAAGATCCAAGAATCATCTTGGCTGGCGTTTAA

>g635.t11 Gene=g635 Length=474
MIRSLSSFPRSVVLRISNRSNQIQQTLRNNIHQQCAVQKLVLTCDTNSQNSLVMQQQHVR
LIQTTTQLLNSEIVKVPPFADSVSEGDVKFDKKVGDAVAADEVVMEIETDKTTVGVPAPS
HGIIEEIFVSDGDTVKAGQQLFKMKFTDAAPEKEASTSTPEPPKAAAAPSPPPPQPKQEA
PKAAPQPQAAPPPAASTPPPPPPKPAAPAKTVPIAAIRHAQAIDAATVKVPPADYTKEIT
GTRTEQRVKMNRMRLKIASRLKEAQNVNAMLTTFNEIDMSAIMEFRKLHQETFQKRYGIK
LGFMSAFCKAAAYALQDQPVVNAVIEDNEIVYRDYVDISVAVASPKGLVVPVLRNVESMN
YAEIELGINALGEKARNGTLAVEDMDGGTFTISNGGVFGSLMGTPIINPPQSAILGMHAT
FERPVAIKGQVVIRPMMYIALTYDHRLIDGREAVTFLRKIKAGVEDPRIILAGV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g635.t11 CDD cd06849 lipoyl_domain 73 144 5.24668E-21
7 g635.t11 Gene3D G3DSA:2.40.50.100 - 69 170 8.4E-18
8 g635.t11 Gene3D G3DSA:3.30.559.10 Chloramphenicol Acetyltransferase 242 473 5.0E-90
12 g635.t11 MobiDBLite mobidb-lite consensus disorder prediction 148 209 -
11 g635.t11 MobiDBLite mobidb-lite consensus disorder prediction 164 209 -
3 g635.t11 PANTHER PTHR43416 DIHYDROLIPOYLLYSINE-RESIDUE SUCCINYLTRANSFERASE COMPONENT OF 2-OXOGLUTARATE DEHYDROGENASE COMPLEX, MITOCHONDRIAL-RELATED 58 471 7.7E-152
4 g635.t11 PANTHER PTHR43416:SF18 DIHYDROLIPOYLLYSINE-RESIDUE SUCCINYLTRANSFERASE COMPONENT OF 2-OXOGLUTARATE DEHYDROGENASE COMPLEX, MITOCHONDRIAL 58 471 7.7E-152
1 g635.t11 Pfam PF00364 Biotin-requiring enzyme 74 144 1.3E-17
2 g635.t11 Pfam PF00198 2-oxoacid dehydrogenases acyltransferase (catalytic domain) 244 470 1.1E-75
10 g635.t11 ProSitePatterns PS00189 2-oxo acid dehydrogenases acyltransferase component lipoyl binding site. 95 124 -
14 g635.t11 ProSiteProfiles PS50968 Biotinyl/lipoyl domain profile. 71 145 24.11
5 g635.t11 SUPERFAMILY SSF51230 Single hybrid motif 72 163 1.7E-19
6 g635.t11 SUPERFAMILY SSF52777 CoA-dependent acyltransferases 244 471 9.34E-84
13 g635.t11 TIGRFAM TIGR01347 sucB: dihydrolipoyllysine-residue succinyltransferase, E2 component of oxoglutarate dehydrogenase (succinyl-transferring) complex 74 471 2.4E-155

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:0006099 tricarboxylic acid cycle BP
GO:0045252 oxoglutarate dehydrogenase complex CC
GO:0016746 acyltransferase activity MF
GO:0004149 dihydrolipoyllysine-residue succinyltransferase activity MF

KEGG

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.

Raw TPM values