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.t15 TSS g635.t15 4679520 4679520
chr_3 g635 g635.t15 isoform g635.t15 4679981 4682657
chr_3 g635 g635.t15 exon g635.t15.exon1 4679981 4680068
chr_3 g635 g635.t15 exon g635.t15.exon2 4680142 4680255
chr_3 g635 g635.t15 cds g635.t15.CDS1 4680149 4680255
chr_3 g635 g635.t15 exon g635.t15.exon3 4680321 4680606
chr_3 g635 g635.t15 cds g635.t15.CDS2 4680321 4680606
chr_3 g635 g635.t15 exon g635.t15.exon4 4681640 4682071
chr_3 g635 g635.t15 cds g635.t15.CDS3 4681640 4682071
chr_3 g635 g635.t15 exon g635.t15.exon5 4682134 4682439
chr_3 g635 g635.t15 cds g635.t15.CDS4 4682134 4682439
chr_3 g635 g635.t15 exon g635.t15.exon6 4682523 4682657
chr_3 g635 g635.t15 cds g635.t15.CDS5 4682523 4682657
chr_3 g635 g635.t15 TTS g635.t15 4683211 4683211

Sequences

>g635.t15 Gene=g635 Length=1361
AGATCCAGCAAACGTTGAGGAATAATATTCATCAACAATGTGCCGTTCAAAAGTTGGTGC
TTACATGCGACACAAATTCTCAAAATTCATTAGTTATGCAGCAACAACATGTTAGATTAA
TTCAAACAACTACGCAACTTCTTAATTCTGAAATCGTTAAGGTGCCACCATTTGCCGATT
CTGTATCAGAAGGTGATGTAAAATTTGATAAGAAAGTAGGTGATGCAGTTGCAGCTGATG
AGGTTGTTATGGAAATTGAAACCGATAAGACAACAGTTGGTGTTCCAGCTCCATCGCATG
GTATCATTGAGGAAATTTTTGTTTCAGACGGTGATACAGTAAAGGCTGGACAACAGTTGT
TCAAAATGAAGTTTACAGATGCCGCACCAGAAAAAGAAGCATCAACTTCCACGCCAGAAC
CTCCAAAAGCAGCTGCTGCACCTTCACCACCACCACCACAACCTAAACAAGAAGCACCAA
AAGCTGCTCCTCAACCACAAGCAGCACCACCACCTGCTGCATCAACACCTCCACCACCGC
CTCCAAAACCAGCAGCACCAGCAAAAACCGTTCCAATTGCTGCCATTCGACATGCACAAG
CTATCGATGCTGCCACAGTTAAAGTACCTCCAGCTGATTATACAAAAGAAATCACTGGCA
CACGCACGGAACAGCGTGTAAAAATGAATCGAATGCGTCTAAAGATTGCATCACGTTTGA
AGGAAGCACAAAATGTCAATGCAATGTTAACAACATTCAATGAAATTGATATGAGTGCAA
TCATGGAATTCCGCAAGTTGCATCAAGAAACCTTCCAAAAGCGTTATGGAATTAAATTAG
GATTTATGTCAGCTTTCTGTAAAGCTGCTGCTTATGCTCTTCAAGATCAACCAGTTGTTA
ATGCTGTTATTGAAGATAATGAAATTGTTTATCGTGATTATGTTGATATTTCGGTTGCTG
TTGCATCACCAAAAGGTTTAGTTGTGCCAGTTTTGCGTAATGTAGAATCAATGAATTATG
CTGAAATTGAATTGGGTATCAATGCTTTGGGCGAGAAAGCTCGTAATGGAACATTAGCTG
TTGAAGATATGGACGGTGGTACTTTTACAATCAGTAATGGAGGCGTATTTGGTTCACTAA
TGGGTACTCCAATTATTAATCCACCACAAAGTGCTATTCTCGGTATGCACGCAACATTTG
AGCGACCAGTGGCTATCAAAGGACAAGTCGTTATTCGTCCCATGATGTACATCGCACTTA
CGTATGATCATCGTTTGATTGATGGACGTGAGGCTGTGACTTTCTTGCGTAAAATCAAAG
CAGGTGTCGAAGATCCAAGAATCATCTTGGCTGGCGTTTAA

>g635.t15 Gene=g635 Length=421
MQQQHVRLIQTTTQLLNSEIVKVPPFADSVSEGDVKFDKKVGDAVAADEVVMEIETDKTT
VGVPAPSHGIIEEIFVSDGDTVKAGQQLFKMKFTDAAPEKEASTSTPEPPKAAAAPSPPP
PQPKQEAPKAAPQPQAAPPPAASTPPPPPPKPAAPAKTVPIAAIRHAQAIDAATVKVPPA
DYTKEITGTRTEQRVKMNRMRLKIASRLKEAQNVNAMLTTFNEIDMSAIMEFRKLHQETF
QKRYGIKLGFMSAFCKAAAYALQDQPVVNAVIEDNEIVYRDYVDISVAVASPKGLVVPVL
RNVESMNYAEIELGINALGEKARNGTLAVEDMDGGTFTISNGGVFGSLMGTPIINPPQSA
ILGMHATFERPVAIKGQVVIRPMMYIALTYDHRLIDGREAVTFLRKIKAGVEDPRIILAG
V

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g635.t15 CDD cd06849 lipoyl_domain 20 91 3.35665E-20
7 g635.t15 Gene3D G3DSA:2.40.50.100 - 16 117 6.9E-18
8 g635.t15 Gene3D G3DSA:3.30.559.10 Chloramphenicol Acetyltransferase 189 420 3.7E-90
12 g635.t15 MobiDBLite mobidb-lite consensus disorder prediction 95 156 -
11 g635.t15 MobiDBLite mobidb-lite consensus disorder prediction 111 156 -
3 g635.t15 PANTHER PTHR43416 DIHYDROLIPOYLLYSINE-RESIDUE SUCCINYLTRANSFERASE COMPONENT OF 2-OXOGLUTARATE DEHYDROGENASE COMPLEX, MITOCHONDRIAL-RELATED 6 418 1.7E-151
4 g635.t15 PANTHER PTHR43416:SF18 DIHYDROLIPOYLLYSINE-RESIDUE SUCCINYLTRANSFERASE COMPONENT OF 2-OXOGLUTARATE DEHYDROGENASE COMPLEX, MITOCHONDRIAL 6 418 1.7E-151
1 g635.t15 Pfam PF00364 Biotin-requiring enzyme 21 91 1.1E-17
2 g635.t15 Pfam PF00198 2-oxoacid dehydrogenases acyltransferase (catalytic domain) 191 417 7.9E-76
10 g635.t15 ProSitePatterns PS00189 2-oxo acid dehydrogenases acyltransferase component lipoyl binding site. 42 71 -
14 g635.t15 ProSiteProfiles PS50968 Biotinyl/lipoyl domain profile. 18 92 24.11
5 g635.t15 SUPERFAMILY SSF51230 Single hybrid motif 19 110 1.44E-19
6 g635.t15 SUPERFAMILY SSF52777 CoA-dependent acyltransferases 191 418 6.67E-84
13 g635.t15 TIGRFAM TIGR01347 sucB: dihydrolipoyllysine-residue succinyltransferase, E2 component of oxoglutarate dehydrogenase (succinyl-transferring) complex 21 418 1.5E-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