General information for g2966.t6
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.t6 | isoform | g2966.t6 | 21618544 | 21619892 |
| chr_3 | g2966 | g2966.t6 | exon | g2966.t6.exon1 | 21618544 | 21619498 |
| chr_3 | g2966 | g2966.t6 | cds | g2966.t6.CDS1 | 21618545 | 21619498 |
| chr_3 | g2966 | g2966.t6 | exon | g2966.t6.exon2 | 21619724 | 21619892 |
| chr_3 | g2966 | g2966.t6 | cds | g2966.t6.CDS2 | 21619724 | 21619789 |
| chr_3 | g2966 | g2966.t6 | TSS | g2966.t6 | 21620868 | 21620868 |
| chr_3 | g2966 | g2966.t6 | TTS | g2966.t6 | NA | NA |
Sequences
>g2966.t6 Gene=g2966 Length=1124
GGTAAATTCATTTATCTAAAATATTTTATTGTGCTTTAAAATCAATTTTTTTTGTAGATT
AATAAAGAATAAGCAACTTGAGTTTGTCACGGGTGGTTGGGTAATGACAGATGAAGCAGC
ATCACATTGGTATTCGATTCTCCAATCTTTAACTGAGGGCCAAGTGTGGATGATGCCATT
CTATTCATATGATGTTCCTCATACATGTGGTCCCGATCCGAAAATTTGTTGTCAGTTTGA
TTTCAAAAGACTTCCTGGTTATGGACTAAGCTGCCCATGGAAAGTTCCGCCGGTTCCTAT
CACTGACGATAATGTGGCAAAAAGAGCAGAAATGATAGTTGATCAATGGAGGAAAAAGTC
TGTTTTGTATAAAACTCGGTCAGTGTTGATACCGTTGGGTGATGATTTTCGTTACACTCA
ATCAATGGAATGGGAAGCACAGCGTGTGAATTTTGAAAAAATATTTGAATATGTAAACAA
TGAACCCAGTTTTAACGTTGAAGCGAAATTTGCCACGCTGCAAGAATATTTCGATTCAGT
GCGTCATGAAAAAGGAACAAATCAATTTCCAAGTTTAACCGGAGACTTCTTTACATATGC
CGATCGTGACGACCATTATTGGTCAGGATATTTCACATCGAGACCATTTTACAAAAGAAT
TGATCGTATTTTAATGAATTATCTAAGAACTGCTGAAATGCTTCATTCATGGACATCATG
GGAAAAATCGACGGGATTTGAGAAGCGTCTAGAGCAGGCAAGAAGAGCTCTTTCGATTTT
TCAACATCATGATGGTGTTACTGGTACAGCTAAAGATTATGTAATGGCAGACTATAATGA
AATGATGACTGATGGCATAAAGAATAGCAAATTTGTTATTCAACAAGCTGTCTATAAATT
ATTAACAGAATCAAATATTTATCATCCCGACTATTCATTTACTTATTTCAATATTGATGA
CTCTCGAACTGCTGCAAGCGATGATTCATCTCGTTCTGTTATTATAATTGGAGACGAAAT
TCCATATAAATATGTTGTTATACACAATTCACAGACATATTTGCGAAATGAAGTTGTGGA
ATTCTTTGTAGCTAAACCTTTCGTGTGTGTAACTGACGCTGATG
>g2966.t6 Gene=g2966 Length=340
MTDEAASHWYSILQSLTEGQVWMMPFYSYDVPHTCGPDPKICCQFDFKRLPGYGLSCPWK
VPPVPITDDNVAKRAEMIVDQWRKKSVLYKTRSVLIPLGDDFRYTQSMEWEAQRVNFEKI
FEYVNNEPSFNVEAKFATLQEYFDSVRHEKGTNQFPSLTGDFFTYADRDDHYWSGYFTSR
PFYKRIDRILMNYLRTAEMLHSWTSWEKSTGFEKRLEQARRALSIFQHHDGVTGTAKDYV
MADYNEMMTDGIKNSKFVIQQAVYKLLTESNIYHPDYSFTYFNIDDSRTAASDDSSRSVI
IIGDEIPYKYVVIHNSQTYLRNEVVEFFVAKPFVCVTDAD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g2966.t6 | Gene3D | G3DSA:3.20.110.10 | Glycoside hydrolase 38 | 21 | 169 | 0 |
| 10 | g2966.t6 | Gene3D | G3DSA:1.20.1270.50 | Families 57/38 glycoside transferase middle domain | 170 | 280 | 0 |
| 9 | g2966.t6 | Gene3D | G3DSA:2.60.40.1180 | - | 281 | 340 | 0 |
| 3 | g2966.t6 | PANTHER | PTHR11607:SF57 | ALPHA-MANNOSIDASE 2X | 23 | 340 | 0 |
| 4 | g2966.t6 | PANTHER | PTHR11607 | ALPHA-MANNOSIDASE | 23 | 340 | 0 |
| 2 | g2966.t6 | Pfam | PF01074 | Glycosyl hydrolases family 38 N-terminal domain | 23 | 166 | 0 |
| 1 | g2966.t6 | Pfam | PF09261 | Alpha mannosidase middle domain | 171 | 266 | 0 |
| 7 | g2966.t6 | SMART | SM00872 | Alpha_mann_mid_2 | 171 | 248 | 0 |
| 5 | g2966.t6 | SUPERFAMILY | SSF88713 | Glycoside hydrolase/deacetylase | 1 | 168 | 0 |
| 6 | g2966.t6 | SUPERFAMILY | SSF88688 | Families 57/38 glycoside transferase middle domain | 171 | 277 | 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: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. There were no conditions that were differentially expressed