General information for g9926.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as NADH-ubiquinone oxidoreductase 75 kDa subunit, mitochondrial.
Parent gene
- The parent gene g9926 is located on chr_1: 6059491..6061368 (- strand)
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.t4 | TTS | g9926.t4 | 6058670 | 6058670 |
| chr_1 | g9926 | g9926.t4 | isoform | g9926.t4 | 6058772 | 6061322 |
| chr_1 | g9926 | g9926.t4 | exon | g9926.t4.exon1 | 6058772 | 6058924 |
| chr_1 | g9926 | g9926.t4 | cds | g9926.t4.CDS1 | 6058772 | 6058924 |
| chr_1 | g9926 | g9926.t4 | exon | g9926.t4.exon2 | 6058986 | 6060857 |
| chr_1 | g9926 | g9926.t4 | cds | g9926.t4.CDS2 | 6058986 | 6060857 |
| chr_1 | g9926 | g9926.t4 | exon | g9926.t4.exon3 | 6060910 | 6061074 |
| chr_1 | g9926 | g9926.t4 | cds | g9926.t4.CDS3 | 6060910 | 6061068 |
| chr_1 | g9926 | g9926.t4 | exon | g9926.t4.exon4 | 6061318 | 6061322 |
| chr_1 | g9926 | g9926.t4 | TSS | g9926.t4 | 6061350 | 6061350 |
Sequences
>g9926.t4 Gene=g9926 Length=2195
TTAAGTCAAACATGCTCCGTGTTCCATTGACACGGGCCGTTTTGGCCCAATCTCAGCGAG
CTGGAGTGTTGGCTACATCAAAGAGAATGCAATCAAAAGCACCGGAAAAAGTCGAAGTGT
TTATTGATGATCAGCCAGTAATGGTTTTACCAGGAACTACAGTTTTACAGGCAGCAGCAC
AAGTTGGAATTGAGATTCCAAGATTTTGTTATCATGAACGTTTAGCTGTCGCAGGAAATT
GCCGTATGTGCTTAGTTGAAGTTGAAAAGAGTCCTAAACCAGTCGCTGCATGTGCAATGC
CAGTCATGAAGGGATGGAGAATCAAGACAAATTCAGAAATGACACGTCGTGCACGTGAAG
GTGTCATGGAATTTCTTCTTGCAAATCATCCACTTGATTGCCCAATTTGTGATCAAGGTG
GTGAGTGCGATTTACAAGATCAAGCAATGTCATTCGGTTCAGATCGTTCACGTTTTACTG
ACATCGATCACGCCGGCAAAAGAGCAGTTGAAGATAAAGATATTGGTCCATTAATAAAAA
CCACTATGACTCGTTGCATTCATTGTACACGTTGCATTAGATTTGCCTCAGAAGTTGCCG
GAGTTGATGATTTGGGCACAACTGGAAGAGGCAATGACATGCAAGTAGGAACATATGTTG
AGAAATTATTCCTCTCTGAAATATCTGGAAATGTAATTGATTTGTGTCCAGTCGGTGCAC
TCACCAATAAACCATACAGTTTTGTTGCTCGTCCATGGGAAATCAGAAGAATCGATAGTA
TCGATGTACTCGATGCACTTGGTAGCAATATTACAGTAAATACAAGAACTGGTGAAGTAT
TGCGAATTCTTCCTCGTGAAAATGAAGACATTAATGAAGAATGGCTCTCGGATAAATCGA
GATTTGCTTGTGATGGATTAAAACGTCAACGTTTAATTACACCAATGTTGCGAAAACCAG
ATGGTGAATTAGAAGCTGTCGAATGGGAAACAGCTTTGATTGGTGTTGCTCAAGCTGTCA
AAAATGCAGGAAGCAAAGTTGCAGCAGTTGCTGGTAGTTTTGTCGATGCTGAACAACTTG
TTGCAGTAAAAGATTTGTTAAATCGTCTCGGATCAGAATTGCTTTGTACTGAGCAAAAGT
TCCCAACATCTGATGGACTATCTGGAATAGATTTCAGATCAAATTACTTACTCAATTCAT
CAATTGCTGCATGCGAAGATGCCGATTTAGTTCTTTTAGTCGGCACAAATCCAAGATATG
AAGCTCCATTATTAAACACACGATTGCGCAAAGGCTATGTTCATAAAGAGCTTGATGTTG
CAGTAATTGGTCCACAAATTGATTTGTCATATCGTCATGAGCATCTCGGTAGTAATGCAT
CAATTATTCAAGATATTGTTAGTGGAAAACATCCCTTCGCTAAACGTTTAAAATCAGCTA
AACGTCCATTAATAATTGTTGGTGCTAATGCTCTTTCACGTAATGATGGCAAAGCCTTTT
TGTCATCTCTTCACTCATTCGCAAATCAATTGAAACCAGAAAATAGCGACTGGAAAGTTT
GGAATGTACTCCAAACAAATGCTTCTCAGGTTGCAGCACTTGACATTGGCTACAAACCCG
GTGTTGATGAAGTAATTGCTGCCGGTCCAAAAGTTTTATTCCTTCTTGGTGCCGATAATG
AGGCAATAAATAAGGATAATATTCCTAAAGATTGTTTTGTTGTATATCTTGGACATCATG
GTGATAATGGTGCACCATTATCTCATGCCATCCTTCCTGGAGCAGCTTATACTGAAAAGC
AAGCAACATATGTGAACACAGAAGGTCGTGCACAACAGACACTCATTGCAATCACACCAC
CTGGAATGGCTCGCGAAGATTGGAAAATTATTAGAGCATTGTCTGAAGTTATTGGAACAT
CTTTACCATATGATAATTTGGATGAAATTAGAGACCGATTGGAAGATATTGCACCACATC
TTGTTCGTTATGGACGTTTGGAAGAAAACAACTTTTTCGCTCAAGCTGAGCAATTAGCAA
AATCACAGTCAGTAGCGTTCCAAGGTGAAATTGATGTCAAACAAAAATCATTAGCAGATT
TCTATATGACAGATTCCATTACAAGAGCGTCGCCTACAATGGCAAAATGTGTGCAAGCCA
TTAAAAAGGGGCAAGGAAGAGCATACACATATTAA
>g9926.t4 Gene=g9926 Length=727
MLRVPLTRAVLAQSQRAGVLATSKRMQSKAPEKVEVFIDDQPVMVLPGTTVLQAAAQVGI
EIPRFCYHERLAVAGNCRMCLVEVEKSPKPVAACAMPVMKGWRIKTNSEMTRRAREGVME
FLLANHPLDCPICDQGGECDLQDQAMSFGSDRSRFTDIDHAGKRAVEDKDIGPLIKTTMT
RCIHCTRCIRFASEVAGVDDLGTTGRGNDMQVGTYVEKLFLSEISGNVIDLCPVGALTNK
PYSFVARPWEIRRIDSIDVLDALGSNITVNTRTGEVLRILPRENEDINEEWLSDKSRFAC
DGLKRQRLITPMLRKPDGELEAVEWETALIGVAQAVKNAGSKVAAVAGSFVDAEQLVAVK
DLLNRLGSELLCTEQKFPTSDGLSGIDFRSNYLLNSSIAACEDADLVLLVGTNPRYEAPL
LNTRLRKGYVHKELDVAVIGPQIDLSYRHEHLGSNASIIQDIVSGKHPFAKRLKSAKRPL
IIVGANALSRNDGKAFLSSLHSFANQLKPENSDWKVWNVLQTNASQVAALDIGYKPGVDE
VIAAGPKVLFLLGADNEAINKDNIPKDCFVVYLGHHGDNGAPLSHAILPGAAYTEKQATY
VNTEGRAQQTLIAITPPGMAREDWKIIRALSEVIGTSLPYDNLDEIRDRLEDIAPHLVRY
GRLEENNFFAQAEQLAKSQSVAFQGEIDVKQKSLADFYMTDSITRASPTMAKCVQAIKKG
QGRAYTY
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g9926.t4 | CDD | cd00207 | fer2 | 33 | 105 | 9.85992E-12 |
| 12 | g9926.t4 | CDD | cd02773 | MopB_Res-Cmplx1_Nad11 | 255 | 634 | 0.0 |
| 11 | g9926.t4 | Gene3D | G3DSA:3.10.20.740 | - | 33 | 155 | 8.1E-40 |
| 10 | g9926.t4 | Gene3D | G3DSA:3.30.70.20 | - | 162 | 240 | 1.3E-6 |
| 5 | g9926.t4 | PANTHER | PTHR11615 | NITRATE, FORMATE, IRON DEHYDROGENASE | 28 | 673 | 1.8E-184 |
| 6 | g9926.t4 | PANTHER | PTHR11615:SF6 | NADH-UBIQUINONE OXIDOREDUCTASE 75 KDA SUBUNIT, MITOCHONDRIAL | 28 | 673 | 1.8E-184 |
| 2 | g9926.t4 | Pfam | PF13510 | 2Fe-2S iron-sulfur cluster binding domain | 32 | 108 | 5.5E-18 |
| 1 | g9926.t4 | Pfam | PF10588 | NADH-ubiquinone oxidoreductase-G iron-sulfur binding region | 115 | 154 | 4.6E-17 |
| 4 | g9926.t4 | Pfam | PF00384 | Molybdopterin oxidoreductase | 307 | 632 | 6.2E-65 |
| 3 | g9926.t4 | Pfam | PF09326 | NADH-ubiquinone oxidoreductase subunit G, C-terminal | 663 | 713 | 3.2E-14 |
| 15 | g9926.t4 | ProSitePatterns | PS00641 | Respiratory-chain NADH dehydrogenase 75 Kd subunit signature 1. | 63 | 80 | - |
| 14 | g9926.t4 | ProSitePatterns | PS00642 | Respiratory-chain NADH dehydrogenase 75 Kd subunit signature 2. | 130 | 142 | - |
| 16 | g9926.t4 | ProSitePatterns | PS00643 | Respiratory-chain NADH dehydrogenase 75 Kd subunit signature 3. | 181 | 191 | - |
| 19 | g9926.t4 | ProSiteProfiles | PS51085 | 2Fe-2S ferredoxin-type iron-sulfur binding domain profile. | 32 | 110 | 10.3 |
| 20 | g9926.t4 | ProSiteProfiles | PS51839 | His(Cys)3-ligated-type [4Fe-4S] domain profile. | 110 | 149 | 16.387 |
| 21 | g9926.t4 | ProSiteProfiles | PS51669 | Prokaryotic molybdopterin oxidoreductases 4Fe-4S domain profile. | 251 | 307 | 18.835 |
| 17 | g9926.t4 | SMART | SM00929 | NADH_G_4Fe_4S_3_2 | 115 | 155 | 1.2E-20 |
| 7 | g9926.t4 | SUPERFAMILY | SSF54292 | 2Fe-2S ferredoxin-like | 34 | 106 | 1.85E-19 |
| 9 | g9926.t4 | SUPERFAMILY | SSF54862 | 4Fe-4S ferredoxins | 107 | 247 | 5.02E-35 |
| 8 | g9926.t4 | SUPERFAMILY | SSF53706 | Formate dehydrogenase/DMSO reductase, domains 1-3 | 249 | 664 | 2.13E-84 |
| 18 | g9926.t4 | TIGRFAM | TIGR01973 | NuoG: NADH dehydrogenase (quinone), G subunit | 36 | 630 | 2.5E-220 |
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:0009055 | electron transfer activity | MF |
| 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 transcript has been annotated with K03934 (NADH dehydrogenase (ubiquinone) Fe-S protein 1)
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.
