General information for g11835.t5
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g11835 is located on chr_1: 18682891..18683563 (- 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 | g11835 | g11835.t5 | TTS | g11835.t5 | 18682026 | 18682026 |
| chr_1 | g11835 | g11835.t5 | isoform | g11835.t5 | 18682091 | 18682725 |
| chr_1 | g11835 | g11835.t5 | exon | g11835.t5.exon1 | 18682091 | 18682202 |
| chr_1 | g11835 | g11835.t5 | cds | g11835.t5.CDS1 | 18682101 | 18682202 |
| chr_1 | g11835 | g11835.t5 | exon | g11835.t5.exon2 | 18682268 | 18682725 |
| chr_1 | g11835 | g11835.t5 | cds | g11835.t5.CDS2 | 18682268 | 18682417 |
| chr_1 | g11835 | g11835.t5 | TSS | g11835.t5 | 18683648 | 18683648 |
Sequences
>g11835.t5 Gene=g11835 Length=570
GGTATCAACATTTACTTCACGCTGCAAAAGAATTTAAAGTTGATGTTATTCTCGTATTAG
ATCAAGAGAGACTTTATAATGAATTATTACGAGATGTTGATGCAGGATGTAAAGTAGTTT
TTCTGCCAAAAAGTGGTGGAGTAGTTGAACGTAGTCAACAAACAAGAGCTGAAAGCAGAG
ATCAAAGGATCCGGGAATATTTTTATGGTGTCCCTTTGAGATCACCTTTGTATCCTCATT
CTATTGATATTAAATTTTCTGATTTGAAACTTTATAAAATTGGCGCGCCTGTTTTGCCTG
ACTCATGTATGCCTCTCGGAATGAAAGCTACTGATAATATGACAAAACTGTGGCCAATTC
AACCTGGGCCATCTCTAATTCATCACGTACTAGCATTGAGTTTTGCTGAAAATCCTGAAC
AAGATGTCTTGAAAAAAAATGTCATAGGTTTCGTTTGTAACAAATGTAGATGTCGAAAGA
CAAACCATAACAGTGCTTTCACCACAGCCCAGACCTTTACCAAATGTTGTTTTACTTTTA
TCCGAATTGCAGTTTATTGATAGTCATTGA
>g11835.t5 Gene=g11835 Length=83
MPLGMKATDNMTKLWPIQPGPSLIHHVLALSFAENPEQDVLKKNVIGFVCNKCRCRKTNH
NSAFTTAQTFTKCCFTFIRIAVY
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g11835.t5 | Gene3D | G3DSA:3.30.70.2410 | - | 1 | 53 | 0e+00 |
| 1 | g11835.t5 | Pfam | PF06807 | Pre-mRNA cleavage complex II protein Clp1 | 1 | 50 | 2e-07 |
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:0031124 | mRNA 3’-end processing | BP |
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.
