General information for g10841.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Cytochrome c oxidase subunit 5A, mitochondrial.
Parent gene
- The parent gene g10841 is located on chr_1: 12218188..12219013 (+ 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 | g10841 | g10841.t4 | isoform | g10841.t4 | 12217200 | 12218188 |
| chr_1 | g10841 | g10841.t4 | exon | g10841.t4.exon1 | 12217200 | 12217644 |
| chr_1 | g10841 | g10841.t4 | exon | g10841.t4.exon2 | 12217704 | 12218188 |
| chr_1 | g10841 | g10841.t4 | cds | g10841.t4.CDS1 | 12217736 | 12218188 |
| chr_1 | g10841 | g10841.t4 | TTS | g10841.t4 | 12218389 | 12218389 |
| chr_1 | g10841 | g10841.t4 | TSS | g10841.t4 | NA | NA |
Sequences
>g10841.t4 Gene=g10841 Length=930
GGTCAGTGATCAATGTACGATAATTAGGGTGAATTATGCGTTTCAAAGCTTTCATTGAAC
TTTTATAGATTTTTCTAGAATTGATTTTTTAAGACGCGAAGAATTTAAAGAAAATTGAAA
CACGCCGAGTAAAATTGTTATTTTACGGAATAATATCAAATATAAATAGAATTTCAAACT
TTTAATCGATGTATCCTATATTATATAATATATTTTTACTTACACTGTAGTTGACGACAT
TTTACTTTAATTAGAATTAAATGAATTATTATTCTGCGAGATAAAATTACTAAAAAAATT
GAAATTTTTACAAGTTCGAATTTTTTTCGAAAATCTAATGTTTGCATACCCCTATTTTTT
CTTTATCGATTTTACTCAAGCTCTTACGAAATCAAACTTCATAGGCGAAAATTATTTCCA
ATTCATTTATAATCGAATTATTCCTGTGTGTTTGAAAATCGATTAAAGGCAGAAAAAATG
TTGAGAGCTGCTGCAGGACAATTGTCACAGGTTATTCGAGGTTCATTTGGTGTATCTCGT
TTAGCAGCAATTGGAGCTGTTCGAAATTCTTCACATTCAACTGAAACAGATGCCGAATTT
GATGCTCGTTATGAGGCATACTTCAACCGTAATGAAATTGACGGCTGGGAAGCAAGAAAA
GCAATGAACGATCTTCTCGGTATGGATTTAGTGCCAGAACCAAAGATTGTTATTGCTGGA
TTGAAGGCTTGTCGTCGCCTAAACGACTATGCACTTGCAATCCGATGGCTCGAGGGAATT
AAAGACTCATGCGGCCCACATGTCGATACAATTTGGCCATACATGGTTCAAGAAATTCGC
CCAACTTTAACTGAATTAGGAATTGAAACACCAGAAGAATTGGGCTATAATCAACCAGAA
CTCGCACTTAAATCAGTGTATGAGTTGTAA
>g10841.t4 Gene=g10841 Length=150
MLRAAAGQLSQVIRGSFGVSRLAAIGAVRNSSHSTETDAEFDARYEAYFNRNEIDGWEAR
KAMNDLLGMDLVPEPKIVIAGLKACRRLNDYALAIRWLEGIKDSCGPHVDTIWPYMVQEI
RPTLTELGIETPEELGYNQPELALKSVYEL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g10841.t4 | CDD | cd00923 | Cyt_c_Oxidase_Va | 34 | 137 | 0 |
| 4 | g10841.t4 | Gene3D | G3DSA:1.25.40.40 | - | 31 | 139 | 0 |
| 2 | g10841.t4 | PANTHER | PTHR14200 | CYTOCHROME C OXIDASE POLYPEPTIDE | 20 | 139 | 0 |
| 1 | g10841.t4 | Pfam | PF02284 | Cytochrome c oxidase subunit Va | 35 | 137 | 0 |
| 3 | g10841.t4 | SUPERFAMILY | SSF48479 | Cytochrome c oxidase subunit E | 36 | 140 | 0 |
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:0004129 | cytochrome-c oxidase activity | MF |
| GO:0005743 | mitochondrial inner membrane | CC |
KEGG
Orthology
- This transcript has been annotated with K02264 (cytochrome c oxidase subunit 5a)
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.
