General information for g17179.t5
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Mannose-1-phosphate guanyltransferase alpha-B.
Parent gene
- The parent gene g17179 is located on chr_4: 12749598..12750836 (+ 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_4 | g17179 | g17179.t5 | isoform | g17179.t5 | 12749598 | 12750710 |
| chr_4 | g17179 | g17179.t5 | exon | g17179.t5.exon1 | 12749598 | 12750710 |
| chr_4 | g17179 | g17179.t5 | TSS | g17179.t5 | 12749613 | 12749613 |
| chr_4 | g17179 | g17179.t5 | cds | g17179.t5.CDS1 | 12749763 | 12750710 |
| chr_4 | g17179 | g17179.t5 | TTS | g17179.t5 | 12750942 | 12750942 |
Sequences
>g17179.t5 Gene=g17179 Length=1113
TGACTCATTCTTTTAGGGACTCGCTTTAGACCACTAAGTTTGGATTTTCGTAAGCCGCTT
TTTCCAATTGGAGGTCTTCCAATTATTGAGCATCATATTCAAGCATGTACAGAATTAAAA
GAACTTCAAGAGATTCTCATAATTGGTTCTTACAATTCTTCAGAAATGAAATCATTTCTT
GATGAAGTTCAAAATAAATATCAACAAATTACAATTCGTTATTTGCAAGAATTTGTTGAA
TTAGGCACAGCTGGTGGTTTATATCATTTTCGTGATCAAATTCGTCGTGGAAATCCAGAA
GCATTTTTTGTCCTCAATGGTGATGTTTGTGCTGATTTTCCATTAAAGCAACTTTATGAA
TTTCATAAAACTAAGCCAAAATCTTTGATTTCAATTCTAAGCACTGAAGCTGATCGTTTG
GAAAGTGTAAATTATGGTTGTCTTGTTACAAATAAAGAAACTGGTGAAGTCACTCATTAT
GTTGAAAAACCAAATACTTATGTTTCACCACTCATCAATTGTGGAATTTATATCGTTTCA
ACTGACATTTTTCCAGTCATTGCAAATGTTTTTTATTCACGTGAAAAAAATGATTATCAA
AATGTTGGAAATGGCAATAAAGATGAAGGTCATATTCAATTAGAGCAGGAAATTCTTCAA
CCTTTAGCTGGCACTGAAAAACTTTATACGATAACATTGAATATGAAATGGGCACAAGTT
AAAAATGCATCATCAGCAATTTATGCTAATCGACAATCATTGGAATTGCAAAAAGCTCGT
CATCCTGAGCGCTTTAAGTACACAACAAATTGCACAATTATTGACAATGTTTTCATTCAT
CCAACAGCACAAATTGACGACACTGCTGTAATTGGACCAAATGTGTCAATTGGTAAAAAT
GTCATTATTGGTCCAGGTGTGAGAATTCGAGAATCAATAATTTTGGATTATTCAACTGTT
GATAGTCATACTTTAATCATTTGTTCAATTGTTGGAAGAAATTCAAAGATTGGCAAATGG
GTAAGAATTGAAGGAGCTGGAAAAATTGATCCAGATCCTAATAAACCATTTGCAAAAATC
AAAAATTTGCCATTATTTAATCAAAATGGAAAA
>g17179.t5 Gene=g17179 Length=316
MKSFLDEVQNKYQQITIRYLQEFVELGTAGGLYHFRDQIRRGNPEAFFVLNGDVCADFPL
KQLYEFHKTKPKSLISILSTEADRLESVNYGCLVTNKETGEVTHYVEKPNTYVSPLINCG
IYIVSTDIFPVIANVFYSREKNDYQNVGNGNKDEGHIQLEQEILQPLAGTEKLYTITLNM
KWAQVKNASSAIYANRQSLELQKARHPERFKYTTNCTIIDNVFIHPTAQIDDTAVIGPNV
SIGKNVIIGPGVRIRESIILDYSTVDSHTLIICSIVGRNSKIGKWVRIEGAGKIDPDPNK
PFAKIKNLPLFNQNGK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g17179.t5 | Gene3D | G3DSA:3.90.550.10 | Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A | 1 | 200 | 2.4E-34 |
| 8 | g17179.t5 | Gene3D | G3DSA:2.160.10.10 | Hexapeptide repeat proteins | 201 | 287 | 2.7E-17 |
| 3 | g17179.t5 | PANTHER | PTHR22572 | SUGAR-1-PHOSPHATE GUANYL TRANSFERASE | 2 | 293 | 7.3E-104 |
| 4 | g17179.t5 | PANTHER | PTHR22572:SF104 | MANNOSE-1-PHOSPHATE GUANYLTRANSFERASE ALPHA | 2 | 293 | 7.3E-104 |
| 2 | g17179.t5 | Pfam | PF00483 | Nucleotidyl transferase | 6 | 150 | 1.1E-15 |
| 1 | g17179.t5 | Pfam | PF00132 | Bacterial transferase hexapeptide (six repeats) | 221 | 255 | 5.7E-9 |
| 6 | g17179.t5 | ProSitePatterns | PS00101 | Hexapeptide-repeat containing-transferases signature. | 230 | 258 | - |
| 5 | g17179.t5 | SUPERFAMILY | SSF53448 | Nucleotide-diphospho-sugar transferases | 7 | 279 | 4.15E-31 |
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:0009058 | biosynthetic process | BP |
| GO:0016779 | nucleotidyltransferase activity | MF |
| GO:0016740 | transferase 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.
