General information for g11835.t11
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Protein CLP1-like protein.
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.t11 | TTS | g11835.t11 | 18682026 | 18682026 |
| chr_1 | g11835 | g11835.t11 | isoform | g11835.t11 | 18682891 | 18683563 |
| chr_1 | g11835 | g11835.t11 | exon | g11835.t11.exon1 | 18682891 | 18683170 |
| chr_1 | g11835 | g11835.t11 | cds | g11835.t11.CDS1 | 18682892 | 18683170 |
| chr_1 | g11835 | g11835.t11 | exon | g11835.t11.exon2 | 18683235 | 18683400 |
| chr_1 | g11835 | g11835.t11 | cds | g11835.t11.CDS2 | 18683235 | 18683270 |
| chr_1 | g11835 | g11835.t11 | exon | g11835.t11.exon3 | 18683462 | 18683563 |
| chr_1 | g11835 | g11835.t11 | TSS | g11835.t11 | 18683648 | 18683648 |
Sequences
>g11835.t11 Gene=g11835 Length=548
ATGACAGAGACAGGAAATTCAAAAGAGTCTAAAGATTATAATTTAGAAAAAGATTGCGAA
CTAAGATTTGAAATTGAAAGCAAATCTCAAATTAAAGTTGAGTTGAAATCTGGGTTTGCA
GAGCTTTATGGAACAGAATTGGTAAAATCTAAAAAGTATACGTTTTACCAAGGTGCAAAA
GTGGCAATTTTTACATATCAAGGTTGTGTTATCAACATTTCAGGCTCTCCAGATGTGTGC
TATATCGCACGAGAAACGCCAATGGTTAATTCAATATCTTAATACACATAGTGCAATTGA
GCAAATGAGAGTAAATGCTGAAGAAAGAGAAACATGTGGTCCTAAAGTTATGATTGTTGG
TCCAACGGATGTGGGCAAATCAACTTTATGTAAAATCTTATTAAATTATGCTGTTCGACT
AGGACACAGACCTATCTTATCAGATTTAGATGTTGGACAAGGAAATATATCTATTCCTGG
AACAATCGCTTCATTATTAATTGAAAGACCAGCATCAATCGAAGAAGGTTTCTTCTCTCA
ATTGGCAC
>g11835.t11 Gene=g11835 Length=105
MCAISHEKRQWLIQYLNTHSAIEQMRVNAEERETCGPKVMIVGPTDVGKSTLCKILLNYA
VRLGHRPILSDLDVGQGNISIPGTIASLLIERPASIEEGFFSQLA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g11835.t11 | Gene3D | G3DSA:3.40.50.300 | - | 12 | 104 | 0 |
| 2 | g11835.t11 | PANTHER | PTHR12755 | CLEAVAGE/POLYADENYLATION FACTOR IA SUBUNIT CLP1P | 9 | 102 | 0 |
| 3 | g11835.t11 | PANTHER | PTHR12755:SF6 | POLYRIBONUCLEOTIDE 5’-HYDROXYL-KINASE CLP1 | 9 | 102 | 0 |
| 1 | g11835.t11 | Pfam | PF16575 | mRNA cleavage and polyadenylation factor CLP1 P-loop | 43 | 102 | 0 |
| 4 | g11835.t11 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 37 | 85 | 0 |
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. There were no conditions that were differentially expressed