Gene loci information

Transcript annotation

  • This transcript has been annotated as NADH-ubiquinone oxidoreductase 75 kDa subunit, 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 g9926 g9926.t6 TTS g9926.t6 6058670 6058670
chr_1 g9926 g9926.t6 isoform g9926.t6 6059491 6061076
chr_1 g9926 g9926.t6 exon g9926.t6.exon1 6059491 6060853
chr_1 g9926 g9926.t6 cds g9926.t6.CDS1 6059493 6060782
chr_1 g9926 g9926.t6 exon g9926.t6.exon2 6060910 6061076
chr_1 g9926 g9926.t6 TSS g9926.t6 6061350 6061350

Sequences

>g9926.t6 Gene=g9926 Length=1530
AGTCAAACATGCTCCGTGTTCCATTGACACGGGCCGTTTTGGCCCAATCTCAGCGAGCTG
GAGTGTTGGCTACATCAAAGAGAATGCAATCAAAAGCACCGGAAAAAGTCGAAGTGTTTA
TTGATGATCAGCCAGTAATGGTTTTACCAGGAACTACAGTTTTACAGCAGCACAAGTTGG
AATTGAGATTCCAAGATTTTGTTATCATGAACGTTTAGCTGTCGCAGGAAATTGCCGTAT
GTGCTTAGTTGAAGTTGAAAAGAGTCCTAAACCAGTCGCTGCATGTGCAATGCCAGTCAT
GAAGGGATGGAGAATCAAGACAAATTCAGAAATGACACGTCGTGCACGTGAAGGTGTCAT
GGAATTTCTTCTTGCAAATCATCCACTTGATTGCCCAATTTGTGATCAAGGTGGTGAGTG
CGATTTACAAGATCAAGCAATGTCATTCGGTTCAGATCGTTCACGTTTTACTGACATCGA
TCACGCCGGCAAAAGAGCAGTTGAAGATAAAGATATTGGTCCATTAATAAAAACCACTAT
GACTCGTTGCATTCATTGTACACGTTGCATTAGATTTGCCTCAGAAGTTGCCGGAGTTGA
TGATTTGGGCACAACTGGAAGAGGCAATGACATGCAAGTAGGAACATATGTTGAGAAATT
ATTCCTCTCTGAAATATCTGGAAATGTAATTGATTTGTGTCCAGTCGGTGCACTCACCAA
TAAACCATACAGTTTTGTTGCTCGTCCATGGGAAATCAGAAGAATCGATAGTATCGATGT
ACTCGATGCACTTGGTAGCAATATTACAGTAAATACAAGAACTGGTGAAGTATTGCGAAT
TCTTCCTCGTGAAAATGAAGACATTAATGAAGAATGGCTCTCGGATAAATCGAGATTTGC
TTGTGATGGATTAAAACGTCAACGTTTAATTACACCAATGTTGCGAAAACCAGATGGTGA
ATTAGAAGCTGTCGAATGGGAAACAGCTTTGATTGGTGTTGCTCAAGCTGTCAAAAATGC
AGGAAGCAAAGTTGCAGCAGTTGCTGGTAGTTTTGTCGATGCTGAACAACTTGTTGCAGT
AAAAGATTTGTTAAATCGTCTCGGATCAGAATTGCTTTGTACTGAGCAAAAGTTCCCAAC
ATCTGATGGACTATCTGGAATAGATTTCAGATCAAATTACTTACTCAATTCATCAATTGC
TGCATGCGAAGATGCCGATTTAGTTCTTTTAGTCGGCACAAATCCAAGATATGAAGCTCC
ATTATTAAACACACGATTGCGCAAAGGCTATGTTCATAAAGAGCTTGATGTTGCAGTAAT
TGGTCCACAAATTGATTTGTCATATCGTCATGAGCATCTCGGTAGTAATGCATCAATTAT
TCAAGATATTGTTAGTGGAAAACATCCCTTCGCTAAACGTTTAAAATCAGCTAAACGTCC
ATTAATAATTGTTGGTGCTAATGCTCTTTCACGTAATGATGGCAAAGCCTTTTTGTCATC
TCTTCACTCATTCGCAAATCAATTGAAACC

>g9926.t6 Gene=g9926 Length=430
MCLVEVEKSPKPVAACAMPVMKGWRIKTNSEMTRRAREGVMEFLLANHPLDCPICDQGGE
CDLQDQAMSFGSDRSRFTDIDHAGKRAVEDKDIGPLIKTTMTRCIHCTRCIRFASEVAGV
DDLGTTGRGNDMQVGTYVEKLFLSEISGNVIDLCPVGALTNKPYSFVARPWEIRRIDSID
VLDALGSNITVNTRTGEVLRILPRENEDINEEWLSDKSRFACDGLKRQRLITPMLRKPDG
ELEAVEWETALIGVAQAVKNAGSKVAAVAGSFVDAEQLVAVKDLLNRLGSELLCTEQKFP
TSDGLSGIDFRSNYLLNSSIAACEDADLVLLVGTNPRYEAPLLNTRLRKGYVHKELDVAV
IGPQIDLSYRHEHLGSNASIIQDIVSGKHPFAKRLKSAKRPLIIVGANALSRNDGKAFLS
SLHSFANQLK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g9926.t6 Gene3D G3DSA:3.10.20.740 - 1 77 2.9E-21
7 g9926.t6 Gene3D G3DSA:3.30.70.20 - 83 162 6.1E-7
3 g9926.t6 PANTHER PTHR11615 NITRATE, FORMATE, IRON DEHYDROGENASE 1 426 3.4E-109
4 g9926.t6 PANTHER PTHR11615:SF6 NADH-UBIQUINONE OXIDOREDUCTASE 75 KDA SUBUNIT, MITOCHONDRIAL 1 426 3.4E-109
1 g9926.t6 Pfam PF10588 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region 37 76 2.4E-17
2 g9926.t6 Pfam PF00384 Molybdopterin oxidoreductase 229 426 6.5E-33
9 g9926.t6 ProSitePatterns PS00642 Respiratory-chain NADH dehydrogenase 75 Kd subunit signature 2. 52 64 -
10 g9926.t6 ProSitePatterns PS00643 Respiratory-chain NADH dehydrogenase 75 Kd subunit signature 3. 103 113 -
12 g9926.t6 ProSiteProfiles PS51839 His(Cys)3-ligated-type [4Fe-4S] domain profile. 32 71 16.387
13 g9926.t6 ProSiteProfiles PS51669 Prokaryotic molybdopterin oxidoreductases 4Fe-4S domain profile. 173 229 18.835
11 g9926.t6 SMART SM00929 NADH_G_4Fe_4S_3_2 37 77 1.2E-20
6 g9926.t6 SUPERFAMILY SSF54862 4Fe-4S ferredoxins 29 169 2.01E-35
5 g9926.t6 SUPERFAMILY SSF53706 Formate dehydrogenase/DMSO reductase, domains 1-3 171 416 2.36E-49
14 g9926.t6 TIGRFAM TIGR01973 NuoG: NADH dehydrogenase (quinone), G subunit 1 430 3.1E-166

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:0016020 membrane CC
GO:0016651 oxidoreductase activity, acting on NAD(P)H MF
GO:0042773 ATP synthesis coupled electron transport BP
GO:0055114 NA NA
GO:0051536 iron-sulfur cluster binding MF
GO:0008137 NADH dehydrogenase (ubiquinone) activity MF
GO:0016491 oxidoreductase 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