General information for g2869.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Arginine-hydroxylase NDUFAF5, mitochondrial.
Parent gene
- The parent gene g2869 is located on chr_3: 20807687..20812591 (- 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_3 | g2869 | g2869.t3 | TTS | g2869.t3 | 20806517 | 20806517 |
| chr_3 | g2869 | g2869.t3 | isoform | g2869.t3 | 20806542 | 20807687 |
| chr_3 | g2869 | g2869.t3 | exon | g2869.t3.exon1 | 20806542 | 20807153 |
| chr_3 | g2869 | g2869.t3 | cds | g2869.t3.CDS1 | 20806542 | 20807153 |
| chr_3 | g2869 | g2869.t3 | exon | g2869.t3.exon2 | 20807207 | 20807687 |
| chr_3 | g2869 | g2869.t3 | cds | g2869.t3.CDS2 | 20807207 | 20807572 |
| chr_3 | g2869 | g2869.t3 | TSS | g2869.t3 | 20807722 | 20807722 |
Sequences
>g2869.t3 Gene=g2869 Length=1093
ATGTTTTTAAATCGCAATTTAATTAAATGTCGCTCAATATTCACAAGTGTAAAGCATTTA
AGGCCAATAGGAAATGTACATCAATCTAGTGATGTGAATATATTTGATGTTTTTAATGCA
AAACGATTGCAAAAGGAGAGAGCGGCGAAAAGGTAAACATTTTTTCAACATCCCAATTGC
AGTTGTTCTTCTTTTAATTTACTTAAAAAAAAATTTAAATTTTAGAGATGATGTGGAAAC
ATACGATTACATCAAAGAAGAAGTTGGATTCCGATTGTCAGATCGATTATTTGATATCAA
GAAAGAGTTGAAGAATGCTGTTGATTTTGGTGGAGGAAGAGGCTATTTATCGAAAAATAT
TTTAGCAGAAACAGCACAAAATCTTAAAATTTATGATATAAGTGAAACAATGCTTGAACA
AGCAACAGGAACTCCTGGTGTGGAAATTGAAAAGCATTTACTCACAAATGAGTATTTAGA
TCTTCCTGAAAATAGTCAAGATGTAGTAATATCAAATCTAGCTCTTCATTGGTTTAATGA
TCTTCCTGGAGTGTTTAGATCAATTAATAGATGCTTAAAACCTGATGGTGTATTCTTAGC
ATCACTTTTTGGTGGTGAAACATTATATGAGTTACGATCAACACTTCATTTAGCTGAAGC
AGAGAGATTTGGCGGCCTCTCACCACACATTTCTCCTTTCACTCAAATCAGAGATATTGG
TGGATTACTCAATAGCTCAGGTTTCACAATGCTCACAATTGACACCGATGAAATGGTGAT
TGGTTATCCAAGCATTTTTGAACTTCTTCAAGATCTCAAAGGCATGGCTGAAAATAATGC
AGCATTCAACAGGCCACTCACATTGAGTCGTGATGTTTTGCTATCAGCAGCTGCAATTTA
TAAAGAAATGTACAAGAAAACTCATCCTGAAACTAAAGAAGAAGGTATTCATGCAACATT
TCAAGTCATTTATTTAGTTGGATGGAAACCACATGAAAGTCAGCAAAAACCAGCAGAAAG
AGGTTCAGCAAATGTCTCATTTAAAGATTTAGGAAAAATCATGACTGAGAAAAAAGATAA
AAAAGTAGAATAA
>g2869.t3 Gene=g2869 Length=325
MQNDCKRRERRKGKHFFNIPIAVVLLLIYLKKNLNFRDDVETYDYIKEEVGFRLSDRLFD
IKKELKNAVDFGGGRGYLSKNILAETAQNLKIYDISETMLEQATGTPGVEIEKHLLTNEY
LDLPENSQDVVISNLALHWFNDLPGVFRSINRCLKPDGVFLASLFGGETLYELRSTLHLA
EAERFGGLSPHISPFTQIRDIGGLLNSSGFTMLTIDTDEMVIGYPSIFELLQDLKGMAEN
NAAFNRPLTLSRDVLLSAAAIYKEMYKKTHPETKEEGIHATFQVIYLVGWKPHESQQKPA
ERGSANVSFKDLGKIMTEKKDKKVE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g2869.t3 | CDD | cd02440 | AdoMet_MTases | 67 | 165 | 7.29005E-6 |
| 5 | g2869.t3 | Gene3D | G3DSA:3.40.50.150 | Vaccinia Virus protein VP39 | 58 | 282 | 1.1E-21 |
| 2 | g2869.t3 | PANTHER | PTHR13090 | UNCHARACTERIZED | 38 | 319 | 1.0E-102 |
| 1 | g2869.t3 | Pfam | PF13489 | Methyltransferase domain | 53 | 214 | 4.6E-16 |
| 6 | g2869.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 11 | - |
| 8 | g2869.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 12 | 30 | - |
| 7 | g2869.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 31 | 325 | - |
| 4 | g2869.t3 | SUPERFAMILY | SSF53335 | S-adenosyl-L-methionine-dependent methyltransferases | 37 | 292 | 2.79E-28 |
| 3 | g2869.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 13 | 30 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
KEGG
Orthology
- This transcript has been annotated with K18162 (NADH dehydrogenase [ubiquinone] 1 alpha subcomplex assembly factor 5 [EC:2.1.1.-])
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.
