General information for g2966.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Alpha-mannosidase 2.
Parent gene
- The parent gene g2966 is located on chr_3: 21619326..21620737 (- 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_3 | g2966 | g2966.t2 | TTS | g2966.t2 | 21616842 | 21616842 |
| chr_3 | g2966 | g2966.t2 | isoform | g2966.t2 | 21617074 | 21617845 |
| chr_3 | g2966 | g2966.t2 | exon | g2966.t2.exon1 | 21617074 | 21617582 |
| chr_3 | g2966 | g2966.t2 | cds | g2966.t2.CDS1 | 21617074 | 21617582 |
| chr_3 | g2966 | g2966.t2 | exon | g2966.t2.exon2 | 21617647 | 21617845 |
| chr_3 | g2966 | g2966.t2 | cds | g2966.t2.CDS2 | 21617647 | 21617845 |
| chr_3 | g2966 | g2966.t2 | TSS | g2966.t2 | 21617836 | 21617836 |
Sequences
>g2966.t2 Gene=g2966 Length=708
ATGCAATATATAAAGAGAAAAATATTGAAGAAAGTTCCGCTTCAAGGGAATTACTATCCC
ATACCAACTGGAATTTTTATTGAAGACGATTTAATTCGTTTGTCATTATTTACATCTACA
CCTCTTGGAGGTTCATCGCTGAATCCTGGCGAAATTGAAATAATGCAAGATAGACGATTG
AATCAAGATGATGAACGAGGTTTGGGTCAAGGTGTTACTGACAATAAACCGGTATTAAAT
ATTTTCAAGTTAGTGCTTGAAAGTCGAGAATCTTGTAAAAAGAATGATGAACAATATCCT
ATGGGTTTTCTTACGACCACTGCCTATATGGAACAAAAGAAACTACTTCATCCATTTGAG
AAATTAATATATTCTGAAAATGACTGGAATGGAGTGAAACATAGTTTCGGAAATGATCAT
GAAGAACAAGAGCCCGGATTTGAAATTGTAGTAATGCGAACATTACCTCACATACAAGCA
AATGCAATAGGATTAGTTGTACATAGAACGAATTTTGATAAGTGCTCAGTCGAATCATCA
ATGAATGGAAATCAATTTAATATTAAAAGACTTCTGGGACTTGACGAAAATGAAGAGTCA
AGAGAGATTTATCGTTCAACAGTGACACTTCTAGAGCCACATCAAAAAGTTAGCGATGAA
TCGATTCCAATGTGTGGAATGGATATTAAAGGATTCATTTTAAAATAA
>g2966.t2 Gene=g2966 Length=235
MQYIKRKILKKVPLQGNYYPIPTGIFIEDDLIRLSLFTSTPLGGSSLNPGEIEIMQDRRL
NQDDERGLGQGVTDNKPVLNIFKLVLESRESCKKNDEQYPMGFLTTTAYMEQKKLLHPFE
KLIYSENDWNGVKHSFGNDHEEQEPGFEIVVMRTLPHIQANAIGLVVHRTNFDKCSVESS
MNGNQFNIKRLLGLDENEESREIYRSTVTLLEPHQKVSDESIPMCGMDIKGFILK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g2966.t2 | Gene3D | G3DSA:2.70.98.30 | - | 1 | 117 | 0.0e+00 |
| 7 | g2966.t2 | Gene3D | G3DSA:2.60.40.1360 | - | 140 | 235 | 3.2e-05 |
| 3 | g2966.t2 | PANTHER | PTHR11607:SF57 | ALPHA-MANNOSIDASE 2X | 1 | 232 | 0.0e+00 |
| 4 | g2966.t2 | PANTHER | PTHR11607 | ALPHA-MANNOSIDASE | 1 | 232 | 0.0e+00 |
| 1 | g2966.t2 | Pfam | PF07748 | Glycosyl hydrolases family 38 C-terminal domain | 2 | 66 | 0.0e+00 |
| 2 | g2966.t2 | Pfam | PF18230 | Glycosyl hydrolases family 38 C-terminal sub-domain | 148 | 233 | 1.0e-07 |
| 5 | g2966.t2 | SUPERFAMILY | SSF74650 | Galactose mutarotase-like | 1 | 234 | 0.0e+00 |
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:0030246 | carbohydrate binding | MF |
| GO:0006013 | mannose metabolic process | BP |
| GO:0005975 | carbohydrate metabolic process | BP |
| GO:0003824 | catalytic activity | MF |
| GO:0004559 | alpha-mannosidase activity | MF |
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.
