General information for g2405.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Chitobiosyldiphosphodolichol beta-mannosyltransferase.
Parent gene
- The parent gene g2405 is located on chr_3: 17686501..17687452 (- 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 | g2405 | g2405.t1 | TTS | g2405.t1 | 17685869 | 17685869 |
| chr_3 | g2405 | g2405.t1 | isoform | g2405.t1 | 17686023 | 17687452 |
| chr_3 | g2405 | g2405.t1 | exon | g2405.t1.exon1 | 17686023 | 17686230 |
| chr_3 | g2405 | g2405.t1 | cds | g2405.t1.CDS1 | 17686023 | 17686230 |
| chr_3 | g2405 | g2405.t1 | exon | g2405.t1.exon2 | 17686289 | 17687235 |
| chr_3 | g2405 | g2405.t1 | cds | g2405.t1.CDS2 | 17686289 | 17687235 |
| chr_3 | g2405 | g2405.t1 | exon | g2405.t1.exon3 | 17687297 | 17687452 |
| chr_3 | g2405 | g2405.t1 | cds | g2405.t1.CDS3 | 17687297 | 17687452 |
| chr_3 | g2405 | g2405.t1 | TSS | g2405.t1 | 17687507 | 17687507 |
Sequences
>g2405.t1 Gene=g2405 Length=1311
ATGAGTACAAATCCAAGCCCAAAAACCAAAAGAGCATGGATAGTTGTGCTTGGAGATATT
GGAAGAAGTCCTCGAATGCAAAATCATGCAAAAAGCTTTGCAGAAAACAATCATTTAGTG
GAAGTAATAGGATATGATGAGTCAAGAGTGAATCAGGAAATATCATCAGACCCAAGAATT
TCAATTAACAGAATGACACCATTCCCGGAGATTCAATTGCCTCGACTTGTGAAATACATT
TTCAAAATATTCTGGAGTATACTATCGCTTTTGAGTGTCTTTTTGAGCGTCAAAAAAGCC
GATTTATTAATGCTACAAAATCCTCCTGGAATTCCTGCACTCTTTTTATGCTACTTCTAT
TGTAAAATCGTACAAGCCAAATTCATAATTGATTGGCATAATTATACGTGGACTATTATG
GCTTTAGACACATCGCCACGCAGTTTTATGGTCAAATTTGCAAAAACAATCGAATTCTAT
TTTGGTCGAAAGAGTGATTTAAATTTTTGTGTGACTGAAGCAATGAAACAAGATTTGCAT
GAGAATTATGATATTGAAGCAACTGTTCTTTATGATCGTCCTCCTGAAAAATTTCAACCA
ATATCAGTGGATAAAAAACATGATTTATTTGTGAATCTTGCAAAGGTTTATTCAGAATTC
AGATCTGAAAAAGATTTTTATGAAACAACAGCATTCACAACAAAAAGTGATAGCGGTGAA
ATCAAATTAAGAGACGATAGGCCTGGATTAATTGTCTCTAGCACAAGTTGGACGCCAGAT
GAAGACTTTCAAGTGCTTCTAGACGCACTAATTTATTATGATAAAACAGCAGCAACTGAT
GACGTCAAATATCCAAAATTAATTTGTGCTATTACTGGCAAAGGACCACAAAAAACTATG
TATCAACAAAAGATTGCAGAACAGAATTTTAAATTTGTAAAAATTATAACACCATGGCTT
GAAAATGAAGAGTATCCTTTGATGCTTGCTGCTGCAGATTTAGGTGTGTGTCTGCATTAC
AGTTCTAGTGGCTTGGATTTACCAATGAAAGTTGTTGATATGTTTGGATGTGGATTGCCT
GTTTGTGCTATGAATTTTAAATGCCTGCACGAATTAGTTGTTGATGGAAAAAATGGATTT
GTTTTTAATGACTCCAAAGAATTGGGTAATCAATTAACGAATTGGTTTTATGGATTCCCA
GGAAATGCAGCTTTATTAGCAATGAAAGATGAGTTTGCGAAAAATATTAAAAAGTTTCAT
TCGCTTCGATGGAAAGAAAACTGGGAGAAAGTGGCTCTCAATCGGCTTTAA
>g2405.t1 Gene=g2405 Length=436
MSTNPSPKTKRAWIVVLGDIGRSPRMQNHAKSFAENNHLVEVIGYDESRVNQEISSDPRI
SINRMTPFPEIQLPRLVKYIFKIFWSILSLLSVFLSVKKADLLMLQNPPGIPALFLCYFY
CKIVQAKFIIDWHNYTWTIMALDTSPRSFMVKFAKTIEFYFGRKSDLNFCVTEAMKQDLH
ENYDIEATVLYDRPPEKFQPISVDKKHDLFVNLAKVYSEFRSEKDFYETTAFTTKSDSGE
IKLRDDRPGLIVSSTSWTPDEDFQVLLDALIYYDKTAATDDVKYPKLICAITGKGPQKTM
YQQKIAEQNFKFVKIITPWLENEEYPLMLAAADLGVCLHYSSSGLDLPMKVVDMFGCGLP
VCAMNFKCLHELVVDGKNGFVFNDSKELGNQLTNWFYGFPGNAALLAMKDEFAKNIKKFH
SLRWKENWEKVALNRL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g2405.t1 | CDD | cd03816 | GT33_ALG1-like | 7 | 436 | 0.0 |
| 5 | g2405.t1 | Gene3D | G3DSA:3.40.50.2000 | Glycogen Phosphorylase B; | 20 | 192 | 5.5E-10 |
| 4 | g2405.t1 | Gene3D | G3DSA:3.40.50.2000 | Glycogen Phosphorylase B; | 235 | 408 | 7.8E-18 |
| 2 | g2405.t1 | PANTHER | PTHR13036 | BETA1,4 MANNOSYLTRANSFERASE | 8 | 433 | 3.7E-161 |
| 1 | g2405.t1 | Pfam | PF00534 | Glycosyl transferases group 1 | 244 | 385 | 7.4E-8 |
| 6 | g2405.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 78 | - |
| 10 | g2405.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 79 | 97 | - |
| 8 | g2405.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 98 | 108 | - |
| 9 | g2405.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 109 | 130 | - |
| 7 | g2405.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 131 | 436 | - |
| 3 | g2405.t1 | SUPERFAMILY | SSF53756 | UDP-Glycosyltransferase/glycogen phosphorylase | 26 | 412 | 3.01E-25 |
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:0016757 | glycosyltransferase activity | MF |
| GO:0000030 | mannosyltransferase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K03842 (beta-1,4-mannosyltransferase)
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.
