General information for g10807.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative mRNA-decapping enzyme 1B.
Parent gene
- The parent gene g10807 is located on chr_1: 12071419..12071640 (- 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 | g10807 | g10807.t2 | TTS | g10807.t2 | 12070287 | 12070287 |
| chr_1 | g10807 | g10807.t2 | isoform | g10807.t2 | 12070903 | 12071640 |
| chr_1 | g10807 | g10807.t2 | exon | g10807.t2.exon1 | 12070903 | 12071439 |
| chr_1 | g10807 | g10807.t2 | cds | g10807.t2.CDS1 | 12070904 | 12071439 |
| chr_1 | g10807 | g10807.t2 | exon | g10807.t2.exon2 | 12071499 | 12071640 |
| chr_1 | g10807 | g10807.t2 | cds | g10807.t2.CDS2 | 12071499 | 12071640 |
| chr_1 | g10807 | g10807.t2 | TSS | g10807.t2 | 12071703 | 12071703 |
Sequences
>g10807.t2 Gene=g10807 Length=679
ATGGACGAATCAACAAAGCTACGTATGAACTTGATGGCAATTCAAAAGGTCGATCCATAT
GCAAAGGAGATATTAGATTCGTGTCCACATGTAGCATTTTACAAATATGTTGACAATGAA
TGGCAGAAGTCTGAAATTGAAGGATCTTTCTTCGTTTATGCTCGTGTTGCTGAACCTCTT
CATAGTATTTTTATTAACAATCGATTGAATACGAATTCATTAGTTGAGCCAATTACTAAG
CCGATTGAATTGCAGTCGCAACCTCCTTTTCTTTTATATCGAAATCAGAGACAAGCAATT
ACAGGGTTTTGGTTTTATTGCAAAGAAGATTGTATTCGAATTCATGCATTGCTAGAAAGA
CTCATTAAGAAAATATCCAGTTCAAATCTTAATCATCAAAATAGTTCTTCTTCAAATAAT
GCAAAACCTGAATTGCAACAACAACAACCAGTTAATATTCTTCAAAATCTTAATAATGGT
AGTAAAAATCAAGATGTTGACATTTTTACAATGCTTTATAAAGCACAAGCGGAATTTAAT
CACTCAAATGGGCCAGCCTCATCAGTTGAGACACAATTTTCTGAGATGAAAATTAATCAA
CAGCCACCACCAAATCATCCACCTTTAATGAAGCAATTATCAAGCGCAATGCCAGATATA
ACTTCTCCAAATGTAGTTA
>g10807.t2 Gene=g10807 Length=226
MDESTKLRMNLMAIQKVDPYAKEILDSCPHVAFYKYVDNEWQKSEIEGSFFVYARVAEPL
HSIFINNRLNTNSLVEPITKPIELQSQPPFLLYRNQRQAITGFWFYCKEDCIRIHALLER
LIKKISSSNLNHQNSSSSNNAKPELQQQQPVNILQNLNNGSKNQDVDIFTMLYKAQAEFN
HSNGPASSVETQFSEMKINQQPPPNHPPLMKQLSSAMPDITSPNVV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g10807.t2 | CDD | cd09804 | Dcp1 | 8 | 122 | 0 |
| 4 | g10807.t2 | Gene3D | G3DSA:2.30.29.30 | - | 1 | 125 | 0 |
| 2 | g10807.t2 | PANTHER | PTHR16290 | TRANSCRIPTION FACTOR SMIF DECAPPING ENZYME DCP1 | 2 | 218 | 0 |
| 1 | g10807.t2 | Pfam | PF06058 | Dcp1-like decapping family | 8 | 120 | 0 |
| 3 | g10807.t2 | SUPERFAMILY | SSF50729 | PH domain-like | 9 | 126 | 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:0008047 | enzyme activator activity | MF |
| GO:0000290 | deadenylation-dependent decapping of nuclear-transcribed mRNA | BP |
| GO:0043085 | positive regulation of catalytic activity | BP |
KEGG
Orthology
- This transcript has been annotated with K12611 (mRNA-decapping enzyme 1B [EC:3.-.-.-])
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. There were no conditions that were differentially expressed