General information for g17179.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Mannose-1-phosphate guanyltransferase alpha-A.
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.t4 | TSS | g17179.t4 | 12749426 | 12749426 |
| chr_4 | g17179 | g17179.t4 | isoform | g17179.t4 | 12749478 | 12750836 |
| chr_4 | g17179 | g17179.t4 | exon | g17179.t4.exon1 | 12749478 | 12749517 |
| chr_4 | g17179 | g17179.t4 | cds | g17179.t4.CDS1 | 12749478 | 12749517 |
| chr_4 | g17179 | g17179.t4 | exon | g17179.t4.exon2 | 12749614 | 12750489 |
| chr_4 | g17179 | g17179.t4 | cds | g17179.t4.CDS2 | 12749614 | 12750489 |
| chr_4 | g17179 | g17179.t4 | exon | g17179.t4.exon3 | 12750710 | 12750836 |
| chr_4 | g17179 | g17179.t4 | cds | g17179.t4.CDS3 | 12750710 | 12750714 |
| chr_4 | g17179 | g17179.t4 | TTS | g17179.t4 | 12750942 | 12750942 |
Sequences
>g17179.t4 Gene=g17179 Length=1043
ATGTTAAAGGCTGTAATTTTAATAGGTGGTGATCGTAAAGGGACTCGCTTTAGACCACTA
AGTTTGGATTTTCGTAAGCCGCTTTTTCCAATTGGAGGTCTTCCAATTATTGAGCATCAT
ATTCAAGCATGTACAGAATTAAAAGAACTTCAAGAGATTCTCATAATTGGTTCTTACAAT
TCTTCAGAAATGAAATCATTTCTTGATGAAGTTCAAAATAAATATCAACAAATTACAATT
CGTTATTTGCAAGAATTTGTTGAATTAGGCACAGCTGGTGGTTTATATCATTTTCGTGAT
CAAATTCGTCGTGGAAATCCAGAAGCATTTTTTGTCCTCAATGGTGATGTTTGTGCTGAT
TTTCCATTAAAGCAACTTTATGAATTTCATAAAACTAAGCCAAAATCTTTGATTTCAATT
CTAAGCACTGAAGCTGATCGTTTGGAAAGTGTAAATTATGGTTGTCTTGTTACAAATAAA
GAAACTGGTGAAGTCACTCATTATGTTGAAAAACCAAATACTTATGTTTCACCACTCATC
AATTGTGGAATTTATATCGTTTCAACTGACATTTTTCCAGTCATTGCAAATGTTTTTTAT
TCACGTGAAAAAAATGATTATCAAAATGTTGGAAATGGCAATAAAGATGAAGGTCATATT
CAATTAGAGCAGGAAATTCTTCAACCTTTAGCTGGCACTGAAAAACTTTATACGATAACA
TTGAATATGAAATGGGCACAAGTTAAAAATGCATCATCAGCAATTTATGCTAATCGACAA
TCATTGGAATTGCAAAAAGCTCGTCATCCTGAGCGCTTTAAGTACACAACAAATTGCACA
ATTATTGACAATGTTTTCATTCATCCAACAGCACAAATTGACGACACTGCTGTAATTGGA
CCAAATGTGTCAATTGATTAAATCCATCAACGACAATAATCGGCAATGGATGTTCAATTT
CATCAGAAATTATTTTATTAAACACAATTATTTTGCCGAGTAAAGAATTGACAAGGTCGT
TTAAAAATGAAATCATTTTGTAA
>g17179.t4 Gene=g17179 Length=306
MLKAVILIGGDRKGTRFRPLSLDFRKPLFPIGGLPIIEHHIQACTELKELQEILIIGSYN
SSEMKSFLDEVQNKYQQITIRYLQEFVELGTAGGLYHFRDQIRRGNPEAFFVLNGDVCAD
FPLKQLYEFHKTKPKSLISILSTEADRLESVNYGCLVTNKETGEVTHYVEKPNTYVSPLI
NCGIYIVSTDIFPVIANVFYSREKNDYQNVGNGNKDEGHIQLEQEILQPLAGTEKLYTIT
LNMKWAQVKNASSAIYANRQSLELQKARHPERFKYTTNCTIIDNVFIHPTAQIDDTAVIG
PNVSID
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g17179.t4 | CDD | cd06428 | M1P_guanylylT_A_like_N | 4 | 259 | 0 |
| 5 | g17179.t4 | Gene3D | G3DSA:3.90.550.10 | Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A | 2 | 267 | 0 |
| 2 | g17179.t4 | PANTHER | PTHR22572 | SUGAR-1-PHOSPHATE GUANYL TRANSFERASE | 3 | 305 | 0 |
| 3 | g17179.t4 | PANTHER | PTHR22572:SF104 | MANNOSE-1-PHOSPHATE GUANYLTRANSFERASE ALPHA | 3 | 305 | 0 |
| 1 | g17179.t4 | Pfam | PF00483 | Nucleotidyl transferase | 3 | 213 | 0 |
| 4 | g17179.t4 | SUPERFAMILY | SSF53448 | Nucleotide-diphospho-sugar transferases | 1 | 291 | 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:0009058 | biosynthetic process | BP |
| GO:0016779 | nucleotidyltransferase 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.
