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.t10 TSS g635.t10 4679520 4679520
chr_3 g635 g635.t10 isoform g635.t10 4679597 4682657
chr_3 g635 g635.t10 exon g635.t10.exon1 4679597 4679662
chr_3 g635 g635.t10 cds g635.t10.CDS1 4679597 4679662
chr_3 g635 g635.t10 exon g635.t10.exon2 4679983 4680068
chr_3 g635 g635.t10 cds g635.t10.CDS2 4679983 4680068
chr_3 g635 g635.t10 exon g635.t10.exon3 4680127 4680255
chr_3 g635 g635.t10 cds g635.t10.CDS3 4680127 4680255
chr_3 g635 g635.t10 exon g635.t10.exon4 4680321 4680606
chr_3 g635 g635.t10 cds g635.t10.CDS4 4680321 4680606
chr_3 g635 g635.t10 exon g635.t10.exon5 4681640 4682071
chr_3 g635 g635.t10 cds g635.t10.CDS5 4681640 4682071
chr_3 g635 g635.t10 exon g635.t10.exon6 4682134 4682443
chr_3 g635 g635.t10 cds g635.t10.CDS6 4682134 4682443
chr_3 g635 g635.t10 exon g635.t10.exon7 4682523 4682657
chr_3 g635 g635.t10 cds g635.t10.CDS7 4682523 4682563
chr_3 g635 g635.t10 TTS g635.t10 4683211 4683211

Sequences

>g635.t10 Gene=g635 Length=1444
ATGATTCGATCACTTTCCTCATTTCCACGAAGTGTTGTTCTTCGCATAAGCAATAGAAGT
AATCAGATCCAGCAAACGTTGAGGAATAATATTCATCAACAATGTGCCGTTCAAAAGTTG
GTGCTTACATGCGACACAAATTCTCAAAATTCAACACTTAAAAATAGATTAGTTATGCAG
CAACAACATGTTAGATTAATTCAAACAACTACGCAACTTCTTAATTCTGAAATCGTTAAG
GTGCCACCATTTGCCGATTCTGTATCAGAAGGTGATGTAAAATTTGATAAGAAAGTAGGT
GATGCAGTTGCAGCTGATGAGGTTGTTATGGAAATTGAAACCGATAAGACAACAGTTGGT
GTTCCAGCTCCATCGCATGGTATCATTGAGGAAATTTTTGTTTCAGACGGTGATACAGTA
AAGGCTGGACAACAGTTGTTCAAAATGAAGTTTACAGATGCCGCACCAGAAAAAGAAGCA
TCAACTTCCACGCCAGAACCTCCAAAAGCAGCTGCTGCACCTTCACCACCACCACCACAA
CCTAAACAAGAAGCACCAAAAGCTGCTCCTCAACCACAAGCAGCACCACCACCTGCTGCA
TCAACACCTCCACCACCGCCTCCAAAACCAGCAGCACCAGCAAAAACCGTTCCAATTGCT
GCCATTCGACATGCACAAGCTATCGATGCTGCCACAGTTAAAGTACCTCCAGCTGATTAT
ACAAAAGAAATCACTGGCACACGCACGGAACAGCGTGTAAAAATGAATCGAATGCGTCTA
AAGATTGCATCACGTTTGAAGGAAGCACAAAATGTCAATGCAATGTTAACAACATTCAAT
GAAATTGATATGAGTGCAATCATGGAATTCCGCAAGTTGCATCAAGAAACCTTCCAAAAG
CGTTATGGAATTAAATTAGGATTTATGTCAGCTTTCTGTAAAGCTGCTGCTTATGCTCTT
CAAGATCAACCAGTTGTTAATGCTGTTATTGAAGATAATGAAATTGTTTATCGTGATTAT
GTTGATATTTCGGTTGCTGTTGCATCACCAAAAGGTTTAGTTGTGCCAGTTTTGCGTAAT
GTAGAATCAATGAATTATGCTGAAATTGAATTGGGTATCAATGCTTTGGGCGAGAAAGCT
CGTAATGGAACATTAGCTGTTGAAGATATGGACGGTGGTACTTTTACAATCAGTAATGGA
GGCGTATTTGGTTCACTAATGGGTACTCCAATTATTAATCCACCACAAAGTGCTATTCTC
GGTATGCACGCAACATTTGAGCGACCAGTGGCTATCAAAGGACAAGTGAGTCGTTATTCG
TCCCATGATGTACATCGCACTTACGTATGATCATCGTTTGATTGATGGACGTGAGGCTGT
GACTTTCTTGCGTAAAATCAAAGCAGGTGTCGAAGATCCAAGAATCATCTTGGCTGGCGT
TTAA

>g635.t10 Gene=g635 Length=449
MIRSLSSFPRSVVLRISNRSNQIQQTLRNNIHQQCAVQKLVLTCDTNSQNSTLKNRLVMQ
QQHVRLIQTTTQLLNSEIVKVPPFADSVSEGDVKFDKKVGDAVAADEVVMEIETDKTTVG
VPAPSHGIIEEIFVSDGDTVKAGQQLFKMKFTDAAPEKEASTSTPEPPKAAAAPSPPPPQ
PKQEAPKAAPQPQAAPPPAASTPPPPPPKPAAPAKTVPIAAIRHAQAIDAATVKVPPADY
TKEITGTRTEQRVKMNRMRLKIASRLKEAQNVNAMLTTFNEIDMSAIMEFRKLHQETFQK
RYGIKLGFMSAFCKAAAYALQDQPVVNAVIEDNEIVYRDYVDISVAVASPKGLVVPVLRN
VESMNYAEIELGINALGEKARNGTLAVEDMDGGTFTISNGGVFGSLMGTPIINPPQSAIL
GMHATFERPVAIKGQVSRYSSHDVHRTYV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g635.t10 CDD cd06849 lipoyl_domain 78 149 1.38943E-21
7 g635.t10 Gene3D G3DSA:2.40.50.100 - 74 175 7.6E-18
8 g635.t10 Gene3D G3DSA:3.30.559.10 Chloramphenicol Acetyltransferase 247 448 1.2E-70
12 g635.t10 MobiDBLite mobidb-lite consensus disorder prediction 153 214 -
11 g635.t10 MobiDBLite mobidb-lite consensus disorder prediction 169 214 -
3 g635.t10 PANTHER PTHR43416 DIHYDROLIPOYLLYSINE-RESIDUE SUCCINYLTRANSFERASE COMPONENT OF 2-OXOGLUTARATE DEHYDROGENASE COMPLEX, MITOCHONDRIAL-RELATED 63 439 5.2E-126
4 g635.t10 PANTHER PTHR43416:SF18 DIHYDROLIPOYLLYSINE-RESIDUE SUCCINYLTRANSFERASE COMPONENT OF 2-OXOGLUTARATE DEHYDROGENASE COMPLEX, MITOCHONDRIAL 63 439 5.2E-126
1 g635.t10 Pfam PF00364 Biotin-requiring enzyme 79 149 1.2E-17
2 g635.t10 Pfam PF00198 2-oxoacid dehydrogenases acyltransferase (catalytic domain) 249 437 5.4E-59
10 g635.t10 ProSitePatterns PS00189 2-oxo acid dehydrogenases acyltransferase component lipoyl binding site. 100 129 -
14 g635.t10 ProSiteProfiles PS50968 Biotinyl/lipoyl domain profile. 76 150 24.11
5 g635.t10 SUPERFAMILY SSF51230 Single hybrid motif 77 168 1.57E-19
6 g635.t10 SUPERFAMILY SSF52777 CoA-dependent acyltransferases 249 438 2.27E-65
13 g635.t10 TIGRFAM TIGR01347 sucB: dihydrolipoyllysine-residue succinyltransferase, E2 component of oxoglutarate dehydrogenase (succinyl-transferring) complex 79 437 2.0E-129

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

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