General information for g13714.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g13714 is located on chr_1: 31978336..31979161 (+ 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 | g13714 | g13714.t1 | isoform | g13714.t1 | 31977847 | 31978336 |
| chr_1 | g13714 | g13714.t1 | exon | g13714.t1.exon1 | 31977847 | 31977854 |
| chr_1 | g13714 | g13714.t1 | cds | g13714.t1.CDS1 | 31977847 | 31977854 |
| chr_1 | g13714 | g13714.t1 | exon | g13714.t1.exon2 | 31977914 | 31978028 |
| chr_1 | g13714 | g13714.t1 | cds | g13714.t1.CDS2 | 31977914 | 31978028 |
| chr_1 | g13714 | g13714.t1 | exon | g13714.t1.exon3 | 31978091 | 31978336 |
| chr_1 | g13714 | g13714.t1 | cds | g13714.t1.CDS3 | 31978091 | 31978336 |
| chr_1 | g13714 | g13714.t1 | TTS | g13714.t1 | 31978426 | 31978426 |
| chr_1 | g13714 | g13714.t1 | TSS | g13714.t1 | NA | NA |
Sequences
>g13714.t1 Gene=g13714 Length=369
ATGGAAATCCGTAACCAAAAGCATCAAGTTTTAACAAACTATGAAGTTTTAATGGCACTT
AGAACAGTCAAAGACTCTAAAAGTTCACATTCAACTAAAAATCTTGCTACGATAACTTAT
GAAACAATACAATACTTGGAAAACACACCGTGCAAAGATCAAACACAAGAAAATATTGAA
AACTTTATTATTGAACTGAAGAAATTTGGTCGACTCACAAAATCAGAAATCCTCACAATG
ATCAACGATCCGCCCACTCTGCCTGTTCATATTCAATTAATTGTCGAGGATTCAGAAGAG
CGGCTTAGCGAAACACAGGTTGATGAAATTATTGAACTCTCAAAAAAGTATTTTCCAAAT
GCTAGTTAG
>g13714.t1 Gene=g13714 Length=122
MEIRNQKHQVLTNYEVLMALRTVKDSKSSHSTKNLATITYETIQYLENTPCKDQTQENIE
NFIIELKKFGRLTKSEILTMINDPPTLPVHIQLIVEDSEERLSETQVDEIIELSKKYFPN
AS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g13714.t1 | Gene3D | G3DSA:1.20.1250.40 | - | 1 | 119 | 0 |
| 2 | g13714.t1 | PANTHER | PTHR15561:SF0 | DNA-DIRECTED RNA POLYMERASE III SUBUNIT RPC9 | 1 | 119 | 0 |
| 3 | g13714.t1 | PANTHER | PTHR15561 | CALCITONIN GENE-RELATED PEPTIDE-RECEPTOR COMPONENT PROTEIN | 1 | 119 | 0 |
| 1 | g13714.t1 | Pfam | PF03874 | RNA polymerase Rpb4 | 11 | 117 | 0 |
| 5 | g13714.t1 | SMART | SM00657 | rpol4neu2 | 1 | 119 | 0 |
| 4 | g13714.t1 | SUPERFAMILY | SSF47819 | HRDC-like | 6 | 119 | 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:0000166 | nucleotide binding | MF |
| GO:0044237 | cellular metabolic process | BP |
| GO:0006384 | transcription initiation from RNA polymerase III promoter | BP |
| GO:0005666 | RNA polymerase III complex | CC |
| GO:0030880 | RNA polymerase complex | CC |
| GO:0006352 | DNA-templated transcription, initiation | BP |
KEGG
Orthology
- This transcript has been annotated with K25304 (DNA-directed RNA polymerase III subunit RPC9)
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.
