General information for g11143.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g11143 is located on chr_1: 14322016..14322946 (- 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 | g11143 | g11143.t3 | isoform | g11143.t3 | 14321439 | 14321935 |
| chr_1 | g11143 | g11143.t3 | exon | g11143.t3.exon1 | 14321439 | 14321935 |
| chr_1 | g11143 | g11143.t3 | TTS | g11143.t3 | 14321452 | 14321452 |
| chr_1 | g11143 | g11143.t3 | cds | g11143.t3.CDS1 | 14321536 | 14321934 |
| chr_1 | g11143 | g11143.t3 | TSS | g11143.t3 | 14322043 | 14322043 |
Sequences
>g11143.t3 Gene=g11143 Length=497
TGTGTTATTGGAAATAAAATCAATTAGTAAAGCCACAGTTTCATCAAAAGAACTGGCTGA
CACATTAAGAAAAGCAACAAAGAAATATTATGGAGACTATGGACTTGCTTCAGTGTCTAA
TTTAAATGTAAAGTTATTCTATGATAAACATAAATTGGCAATAATAAGAGTAACACATGG
ACCACATAAATTTATTACAAGCATAATACCATTATTGAAAACAGCTGGTAAAGAATTAGC
AACTTACAGAATACTGTATATAGGAGCAACAATTAGACAGTGTAAGAAATTCATTATTAA
TCATCAAAATGATGTACTAAGGAAAGTTTTTTCCCAATTAAGCACTGAAAATGAGAGAAA
AAATTTAATTGAAGATCTCACAAAATCATTAGAAATTTAAAAAGCTTCTTTTATTATTAA
TCAATTAAGGCGCAAATAATTATGATATGCTCTAAATAAATATATATTTTCACATATGAA
AAGTTTAAAAAAATAGT
>g11143.t3 Gene=g11143 Length=132
VLLEIKSISKATVSSKELADTLRKATKKYYGDYGLASVSNLNVKLFYDKHKLAIIRVTHG
PHKFITSIIPLLKTAGKELATYRILYIGATIRQCKKFIINHQNDVLRKVFSQLSTENERK
NLIEDLTKSLEI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g11143.t3 | Gene3D | G3DSA:3.30.70.3250 | - | 1 | 104 | 0 |
| 2 | g11143.t3 | PANTHER | PTHR10993:SF12 | RIBONUCLEASE P/MRP PROTEIN SUBUNIT POP5 | 9 | 122 | 0 |
| 3 | g11143.t3 | PANTHER | PTHR10993 | OCTANOYLTRANSFERASE | 9 | 122 | 0 |
| 6 | g11143.t3 | PIRSF | PIRSF023803 | RNase_P | 2 | 131 | 0 |
| 1 | g11143.t3 | Pfam | PF01900 | Rpp14/Pop5 family | 3 | 99 | 0 |
| 4 | g11143.t3 | SUPERFAMILY | SSF160350 | Rnp2-like | 8 | 103 | 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:0016070 | RNA metabolic process | BP |
| GO:0004540 | ribonuclease activity | MF |
| GO:0004526 | ribonuclease P activity | MF |
| GO:0008033 | tRNA processing | BP |
KEGG
Orthology
- This transcript has been annotated with K03537 (ribonuclease P/MRP protein subunit POP5)
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.
