General information for g6053.t48
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Alpha-amylase-related protein.
Parent gene
- The parent gene g6053 is located on chr_2: 13891629..13893158 (+ 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_2 | g6053 | g6053.t48 | TSS | g6053.t48 | 13890242 | 13890242 |
| chr_2 | g6053 | g6053.t48 | isoform | g6053.t48 | 13890408 | 13891391 |
| chr_2 | g6053 | g6053.t48 | exon | g6053.t48.exon1 | 13890408 | 13890509 |
| chr_2 | g6053 | g6053.t48 | exon | g6053.t48.exon2 | 13890563 | 13890632 |
| chr_2 | g6053 | g6053.t48 | exon | g6053.t48.exon3 | 13890692 | 13890915 |
| chr_2 | g6053 | g6053.t48 | cds | g6053.t48.CDS1 | 13890753 | 13890915 |
| chr_2 | g6053 | g6053.t48 | exon | g6053.t48.exon4 | 13890977 | 13891138 |
| chr_2 | g6053 | g6053.t48 | cds | g6053.t48.CDS2 | 13890977 | 13891138 |
| chr_2 | g6053 | g6053.t48 | exon | g6053.t48.exon5 | 13891263 | 13891391 |
| chr_2 | g6053 | g6053.t48 | cds | g6053.t48.CDS3 | 13891263 | 13891372 |
| chr_2 | g6053 | g6053.t48 | TTS | g6053.t48 | 13892345 | 13892345 |
Sequences
>g6053.t48 Gene=g6053 Length=687
GGGACACTCATTGGTGGAGTGGTCGAAGTGGAATTGTTCATTTATTTGAGTGGAAATGGA
ATGATATTGCAAATGAATGTGAAACATTCTTAGCACCAAATGGTTACGCGGGAGTCCAAA
CTTCACCTCCGTCAGAAAATTTAGTCATCGGAAATCGACCCTGGTGGGAAAGATATCAGC
CAGTTTCATATCATTTGAATACACGATCAGGTGATAGAAATGCATTCGCTGATATGGTTA
GACGATGCAATGCTGTTGGTATTCGTATCTATCCTGATGTTGTAATTAATCATATGGCGG
CTGGTGATGGTTATGGAACAGGCGGAAGTGAATCTAGAGTTAGCCAATTAAGCTTCCCAG
CTGTTCCATATGGAAGTAATGACTTCAATCCAAGATGTGATATCACTAATTACAATGATC
CATATCAAGTTAGAAACTGCTGGCTTGTTGGTTTATCTGATCTTAAGACAGGAAGTGATT
ATGTCCGTCAGAAAATTGCCGATTTCTTAAATGATTTGATTAGTCTTGGTGTTGCAGGTA
ATTTCGTCTTAATTTTAACACATGTGGCCAGCAGATGTTCAGAATATTGTCTCACGCCTC
AACAATTTGAACACAAACCACGGTTTCCCAGCCAACGCCCGTCCATTTATCACACAGGAA
GTTATTGATTTGGGTGGTGAAGCAATT
>g6053.t48 Gene=g6053 Length=144
MVRRCNAVGIRIYPDVVINHMAAGDGYGTGGSESRVSQLSFPAVPYGSNDFNPRCDITNY
NDPYQVRNCWLVGLSDLKTGSDYVRQKIADFLNDLISLGVAGNFVLILTHVASRCSEYCL
TPQQFEHKPRFPSQRPSIYHTGSY
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g6053.t48 | Gene3D | G3DSA:3.20.20.80 | Glycosidases | 1 | 141 | 0 |
| 1 | g6053.t48 | PANTHER | PTHR43447 | ALPHA-AMYLASE | 1 | 102 | 0 |
| 2 | g6053.t48 | PANTHER | PTHR43447:SF7 | ALPHA-AMYLASE | 1 | 102 | 0 |
| 3 | g6053.t48 | SUPERFAMILY | SSF51445 | (Trans)glycosidases | 1 | 102 | 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