General information for g5993.t9
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Probable maltase.
Parent gene
- The parent gene g5993 is located on chr_2: 13219931..13220650 (+ 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 | g5993 | g5993.t9 | isoform | g5993.t9 | 13219931 | 13220650 |
| chr_2 | g5993 | g5993.t9 | exon | g5993.t9.exon1 | 13219931 | 13220071 |
| chr_2 | g5993 | g5993.t9 | cds | g5993.t9.CDS1 | 13219958 | 13220071 |
| chr_2 | g5993 | g5993.t9 | exon | g5993.t9.exon2 | 13220129 | 13220650 |
| chr_2 | g5993 | g5993.t9 | cds | g5993.t9.CDS2 | 13220129 | 13220650 |
| chr_2 | g5993 | g5993.t9 | TTS | g5993.t9 | 13220720 | 13220720 |
| chr_2 | g5993 | g5993.t9 | TSS | g5993.t9 | NA | NA |
Sequences
>g5993.t9 Gene=g5993 Length=663
ATTGTTTATTATGGTGAAGAAATTGGAATGATAGATAATTATAACATAACTTGGGAACAA
ACAGATGATCCACAAGCTTGCCAATCAAATTCATCAGTTTATATGCAATTTTCAAGAGAT
CCAGTTAGAACACCAATGCAGTGGGATGATTCACAATTTACTGGATTTTGTGAAAATTGT
GAACCTTGGCTACCAATACATGCAAACTATAGTCAAATTAATGTAAAGAATCAAATTAAT
GATGAAAAGAGTACACTTAGTTTATATAAGAATCTGATTGCATTGCGTAAAGAAAAAGAA
GTGTTGAAAAAAGGCGGAATAACAACACAAACACTTGCTGGTGATGAAGTGTTTGCATTT
AAACGAACCATGAACAATGAGCCGACCATTGCTGTTTTCCTTAATCTTGCATCTACGGAA
AAGACAGTTAGCCTTAGAGATTTACTTCATGCTGATGATATTACAAGTAAAACTAAAGCA
ACAGTGTTGATTGCAAACAACAAAGCAAGTCTTTCAAAAGGTGATTTTTTTTCGGATATT
AATAGTATCACTCTTGGAGGATATGACGCTGTTGTTTTTGAGATTTCATCTGCGACACGT
ATAGCCAAAGGTGCTGCGTTTACAATCACAATCTTCTGGATTATCGTGAAGATTTTTGTG
TAA
>g5993.t9 Gene=g5993 Length=211
MIDNYNITWEQTDDPQACQSNSSVYMQFSRDPVRTPMQWDDSQFTGFCENCEPWLPIHAN
YSQINVKNQINDEKSTLSLYKNLIALRKEKEVLKKGGITTQTLAGDEVFAFKRTMNNEPT
IAVFLNLASTEKTVSLRDLLHADDITSKTKATVLIANNKASLSKGDFFSDINSITLGGYD
AVVFEISSATRIAKGAAFTITIFWIIVKIFV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g5993.t9 | Gene3D | G3DSA:3.20.20.80 | Glycosidases | 1 | 96 | 0.0e+00 |
| 5 | g5993.t9 | Gene3D | G3DSA:2.60.40.1180 | - | 102 | 186 | 0.0e+00 |
| 2 | g5993.t9 | PANTHER | PTHR10357:SF207 | LP11544P-RELATED | 2 | 186 | 0.0e+00 |
| 3 | g5993.t9 | PANTHER | PTHR10357 | ALPHA-AMYLASE FAMILY MEMBER | 2 | 186 | 0.0e+00 |
| 1 | g5993.t9 | Pfam | PF11941 | Domain of unknown function (DUF3459) | 79 | 146 | 6.1e-05 |
| 4 | g5993.t9 | SUPERFAMILY | SSF51445 | (Trans)glycosidases | 7 | 93 | 0.0e+00 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5993/g5993.t9; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5993.t9.fa.iupred3.txt does not exist
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