General information for g3436.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g3436 is located on chr_3: 25447064..25447930 (- 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 | g3436 | g3436.t3 | isoform | g3436.t3 | 25446736 | 25447930 |
| chr_3 | g3436 | g3436.t3 | exon | g3436.t3.exon1 | 25446736 | 25447200 |
| chr_3 | g3436 | g3436.t3 | cds | g3436.t3.CDS1 | 25447064 | 25447200 |
| chr_3 | g3436 | g3436.t3 | exon | g3436.t3.exon2 | 25447261 | 25447308 |
| chr_3 | g3436 | g3436.t3 | cds | g3436.t3.CDS2 | 25447261 | 25447308 |
| chr_3 | g3436 | g3436.t3 | exon | g3436.t3.exon3 | 25447672 | 25447785 |
| chr_3 | g3436 | g3436.t3 | cds | g3436.t3.CDS3 | 25447672 | 25447785 |
| chr_3 | g3436 | g3436.t3 | exon | g3436.t3.exon4 | 25447840 | 25447930 |
| chr_3 | g3436 | g3436.t3 | cds | g3436.t3.CDS4 | 25447840 | 25447930 |
| chr_3 | g3436 | g3436.t3 | TSS | g3436.t3 | 25448014 | 25448014 |
| chr_3 | g3436 | g3436.t3 | TTS | g3436.t3 | NA | NA |
Sequences
>g3436.t3 Gene=g3436 Length=718
ATGATATCAAATAGAGCTTTATGGAAAACTTCAGTCTATATTGCGATCGGTGGTATGACC
AGTGTCATGATTATGAGATCAATTTTAAAAGATAGAGTACGAAAAACAGAATATTATAGA
GAAGCATTTAAAAAATTAAGAGCTCATGAAGGTAAGTGCATTTTTACCACAATCATTTAT
CAAACTTCATTAAAAAATTTTCAGACAAAAGAGGCATACTTTGAAATTGGTGTAAAAGGA
CCAAAAAATATTGGAAAAATGTACTTTTGGGCAGTGTCTGAAAATGAGAAGTGGACTATT
GATCGATTGGAGCTAGAGCTTAGAAATGATGATAAACGTTTGGCTATTGTAAAAAAGGCA
CATGATGCTGAAGTTGTAAAAAATGAATAAATTTTAAAACGGTTTAGTAAAATGTAAATT
AATATCTTCAATACAAGTATTGTATGCAAGTAACACTTGCATACAAAGTTTTGTAAAAAA
AATTGTTCCGAATCATTTTATTCAACAATTTTACAAAATTCGTGTTTTGCTATAAAATTT
CTATAATTTTTTTATGTTATGAAAGTAGTCTTATACAGATGTAGGAAAATTTTAAACTTA
CGATAAAATTAACGAATTAAACTGCAATAGTCAAGTTTACAAACTAAAATCTTTGTATAA
ATTTATTTTTAGAAAAAAAGATACAATAAAAGTTAGAAAAAGTTTTTAGTAAATAAAA
>g3436.t3 Gene=g3436 Length=129
MISNRALWKTSVYIAIGGMTSVMIMRSILKDRVRKTEYYREAFKKLRAHEGKCIFTTIIY
QTSLKNFQTKEAYFEIGVKGPKNIGKMYFWAVSENEKWTIDRLELELRNDDKRLAIVKKA
HDAEVVKNE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g3436.t3 | Coils | Coil | Coil | 100 | 120 | - |
| 2 | g3436.t3 | PANTHER | PTHR47148 | CYTOCHROME C OXIDASE ASSEMBLY FACTOR 1 HOMOLOG | 1 | 123 | 1.8E-16 |
| 1 | g3436.t3 | Pfam | PF08695 | Cytochrome oxidase complex assembly protein 1 | 12 | 117 | 4.2E-9 |
| 6 | g3436.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 11 | - |
| 7 | g3436.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 12 | 29 | - |
| 5 | g3436.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 30 | 129 | - |
| 3 | g3436.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 10 | 29 | - |
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 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.
