General information for g12698.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Probable phosphomannomutase.
Parent gene
- The parent gene g12698 is located on chr_1: 25329666..25330477 (- 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_1 | g12698 | g12698.t1 | TTS | g12698.t1 | 25329618 | 25329618 |
| chr_1 | g12698 | g12698.t1 | isoform | g12698.t1 | 25329666 | 25330477 |
| chr_1 | g12698 | g12698.t1 | exon | g12698.t1.exon1 | 25329666 | 25330039 |
| chr_1 | g12698 | g12698.t1 | cds | g12698.t1.CDS1 | 25329666 | 25330039 |
| chr_1 | g12698 | g12698.t1 | exon | g12698.t1.exon2 | 25330093 | 25330477 |
| chr_1 | g12698 | g12698.t1 | cds | g12698.t1.CDS2 | 25330093 | 25330477 |
| chr_1 | g12698 | g12698.t1 | TSS | g12698.t1 | 25330520 | 25330520 |
Sequences
>g12698.t1 Gene=g12698 Length=759
ATGTTAGAATTAAAACGTGATGAAATTTTATTACTTTTTGATATTGATAATACTTTGACA
TTACCGCGAGATGTGATTGACCCAGAATTTGAAAAATTTCTTTATGAGAAAATTAAGCCA
TTAGCAAAAATTGCAATTGTCACGGGAGCTGATTTACCAAAAATTTATGAACAAATGAAT
GGTGAAAAAATTCTAAAAGAATTCGATTATATTTTTCCTGAAAATGGTATTGTTCACATT
GAGAATGATGTAGAAGTACAAAAGTCATCATTTAGTGAAAAATTAGGCGAAGAAATTCTT
ACTTCTTTCATAGATTTTTCTTTACGATACATTGCTGACTTAAAGCTTCCATTTAAAAGA
GGAACTTTCTTAGAATATCGAAATGGAATGATCAATATTGCACCATGTGGACGTCAATGC
ACAAAAGAAGAGCGAAAAATTTTCAGTGATTTTGATAAAAAGCATCATGTAAGAACAAAA
ATGATTGAAGCTTTAAAGGAAAAATTTCATGATATTGATTTAACTTATGCCATTGGTGGT
CAAATTTCTTTTGATATTTATCCAAAAGGATGGGACAAAAGTTTTTGTCTCACTCGACTT
CCATGTGATAAATTCAAAGAAATTCATTTCTTTGGTGATCAAACAAAATTAGGAGGAAAT
GACCATGAAATTTATGAACATGAGCTCACAATTGGACATCATGTTGATAGTTATAAAGAT
ACTGAAAGAATTTTATCAGAAATGTTCAAATTAAAATAA
>g12698.t1 Gene=g12698 Length=252
MLELKRDEILLLFDIDNTLTLPRDVIDPEFEKFLYEKIKPLAKIAIVTGADLPKIYEQMN
GEKILKEFDYIFPENGIVHIENDVEVQKSSFSEKLGEEILTSFIDFSLRYIADLKLPFKR
GTFLEYRNGMINIAPCGRQCTKEERKIFSDFDKKHHVRTKMIEALKEKFHDIDLTYAIGG
QISFDIYPKGWDKSFCLTRLPCDKFKEIHFFGDQTKLGGNDHEIYEHELTIGHHVDSYKD
TERILSEMFKLK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g12698.t1 | CDD | cd02585 | HAD_PMM | 10 | 248 | 0 |
| 5 | g12698.t1 | Gene3D | G3DSA:3.40.50.1000 | - | 10 | 242 | 0 |
| 6 | g12698.t1 | Gene3D | G3DSA:3.30.1240.20 | - | 90 | 191 | 0 |
| 2 | g12698.t1 | PANTHER | PTHR10466 | PHOSPHOMANNOMUTASE | 9 | 250 | 0 |
| 3 | g12698.t1 | PANTHER | PTHR10466:SF8 | PHOSPHOMANNOMUTASE-RELATED | 9 | 250 | 0 |
| 1 | g12698.t1 | Pfam | PF03332 | Eukaryotic phosphomannomutase | 31 | 250 | 0 |
| 9 | g12698.t1 | SFLD | SFLDG01140 | C2.B: Phosphomannomutase and Phosphatase Like | 4 | 251 | 0 |
| 10 | g12698.t1 | SFLD | SFLDG01143 | C2.B.3: Phosphomannomutase Like | 4 | 251 | 0 |
| 4 | g12698.t1 | SUPERFAMILY | SSF56784 | HAD-like | 10 | 248 | 0 |
| 7 | g12698.t1 | TIGRFAM | TIGR01484 | HAD-SF-IIB: HAD hydrolase, family IIB | 10 | 226 | 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:0004615 | phosphomannomutase activity | MF |
| GO:0009298 | GDP-mannose biosynthetic process | BP |
KEGG
Orthology
- This transcript has been annotated with K17497 (phosphomannomutase)
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.
