General information for g3910.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative N-acylneuraminate-9-phosphatase.
Parent gene
- The parent gene g3910 is located on chr_3: 28792848..28794920 (+ 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 | g3910 | g3910.t2 | isoform | g3910.t2 | 28787236 | 28794920 |
| chr_3 | g3910 | g3910.t2 | exon | g3910.t2.exon1 | 28787236 | 28787521 |
| chr_3 | g3910 | g3910.t2 | TSS | g3910.t2 | 28787259 | 28787259 |
| chr_3 | g3910 | g3910.t2 | cds | g3910.t2.CDS1 | 28787393 | 28787521 |
| chr_3 | g3910 | g3910.t2 | exon | g3910.t2.exon2 | 28792818 | 28793312 |
| chr_3 | g3910 | g3910.t2 | cds | g3910.t2.CDS2 | 28792818 | 28793312 |
| chr_3 | g3910 | g3910.t2 | exon | g3910.t2.exon3 | 28794501 | 28794920 |
| chr_3 | g3910 | g3910.t2 | cds | g3910.t2.CDS3 | 28794501 | 28794920 |
| chr_3 | g3910 | g3910.t2 | TTS | g3910.t2 | 28795149 | 28795149 |
Sequences
>g3910.t2 Gene=g3910 Length=1201
AGGTCTACAAAAGTTTATATAAAATATCTCATGAAGGAGAGCTTAAAATAAAAAAAAAAT
TGTATTTTGAGGCTTCTTCGTTTTATTAGCACGTGTTTTATGTTATCAGTTTCTTATCAA
TTTTCAAGTTCAAACAGTGAATAGTAAAGTTTATTACATGGCTACAAGTAGATTATTATA
TGGACGAAATCATGTTCAATTTTCCAACAAAATCAAAGCTATATTTTTTGATATGGATAA
TACACTCATAAGTACAAGAATTTCAGATGTCAAGACTTGTAAAAAGATTGCCGATATTCT
TTGTAAAGACTATGGCATGGATAAAGAAGAGGCTGATATGTGCACAGCGAGCTACTTGAA
AGAATTCAGAAAGTGTCCTGACCATATTTCAATGTCACTCGATCAATGGCGTTCAGAATT
ATGGAACAATGCTTTACCACCGAAGTACAAGCACTTATCTTACGAAATCTATCAACAATG
GTTGCAGTATCGTTATCACTACTTAGAGCTTCCAACGGAACTTGTACAGATGCTGAGACA
ACTTCGTAAAAATTATCTTCTTGTCATCATCACAAATGGACCAAGCAATGCTCAGTGGGA
GAAAATTCATAAATTAGGTTTCAATATGGGCAAAAATTCTCTATTTGATTGTATACTTGT
TTCAGCTGATTGTGGTTTTGAAAAGCCTGATAGAAGAATTTTTGAAACTGCTTGCAATTA
TTTAGGCATATTACCACAAAATTGCATTATGGTCGGTGATAAACTGGAGAGTGATATAAA
GGGAGGTAAACTGGCGAATTTGTTAGCTACGGTATGGATACCATTGAATTTTCCAGCGAC
AGTTGAGCCAAATGGTAGTATTGTTCCCGATATAACACTAAGTAGCATCTATGAGTTGAA
ATCGCTACTAATTGTCGATGACCAGCCACAGCAGCAATTAACTGGAGGAAATGCGAGATC
ACTAAAGCTAAAAGCATCACGTTCCATTATGAGTAATGGACCATTAAGTTTGTCATCGTC
TACATCATCATCATCTTCATCCCCATCATCAACAAATTCCGCTCCCTTTGCTAGCACCGG
ATGTTTTTCATCGTCATCCTCCAAGGCAAAGAACATCACACCATATCCAAGACGCTTCCT
TTCACCACCGATACCGATTGATTTAGATAATGATGCGTCGAATCAATCCGATGGCTCATG
A
>g3910.t2 Gene=g3910 Length=347
MATSRLLYGRNHVQFSNKIKAIFFDMDNTLISTRISDVKTCKKIADILCKDYGMDKEEAD
MCTASYLKEFRKCPDHISMSLDQWRSELWNNALPPKYKHLSYEIYQQWLQYRYHYLELPT
ELVQMLRQLRKNYLLVIITNGPSNAQWEKIHKLGFNMGKNSLFDCILVSADCGFEKPDRR
IFETACNYLGILPQNCIMVGDKLESDIKGGKLANLLATVWIPLNFPATVEPNGSIVPDIT
LSSIYELKSLLIVDDQPQQQLTGGNARSLKLKASRSIMSNGPLSLSSSTSSSSSSPSSTN
SAPFASTGCFSSSSSKAKNITPYPRRFLSPPIPIDLDNDASNQSDGS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g3910.t2 | Gene3D | G3DSA:3.40.50.1000 | - | 20 | 248 | 7.9E-57 |
| 9 | g3910.t2 | Gene3D | G3DSA:1.20.120.710 | - | 32 | 116 | 7.9E-57 |
| 10 | g3910.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 280 | 347 | - |
| 11 | g3910.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 280 | 320 | - |
| 2 | g3910.t2 | PANTHER | PTHR46470 | N-ACYLNEURAMINATE-9-PHOSPHATASE | 17 | 252 | 2.3E-67 |
| 6 | g3910.t2 | PRINTS | PR00413 | Haloacid dehalogenase/epoxide hydrolase family signature | 19 | 30 | 2.3E-6 |
| 3 | g3910.t2 | PRINTS | PR00413 | Haloacid dehalogenase/epoxide hydrolase family signature | 128 | 141 | 2.3E-6 |
| 5 | g3910.t2 | PRINTS | PR00413 | Haloacid dehalogenase/epoxide hydrolase family signature | 163 | 179 | 2.3E-6 |
| 4 | g3910.t2 | PRINTS | PR00413 | Haloacid dehalogenase/epoxide hydrolase family signature | 181 | 201 | 2.3E-6 |
| 1 | g3910.t2 | Pfam | PF13419 | Haloacid dehalogenase-like hydrolase | 22 | 215 | 6.6E-22 |
| 14 | g3910.t2 | SFLD | SFLDG01129 | C1.5: HAD, Beta-PGM, Phosphatase Like | 18 | 248 | 6.5E-28 |
| 15 | g3910.t2 | SFLD | SFLDS00003 | Haloacid Dehalogenase | 18 | 248 | 6.5E-28 |
| 7 | g3910.t2 | SUPERFAMILY | SSF56784 | HAD-like | 18 | 251 | 1.23E-39 |
| 12 | g3910.t2 | TIGRFAM | TIGR02253 | CTE7: HAD hydrolase, TIGR02253 family | 18 | 247 | 3.3E-58 |
| 13 | g3910.t2 | TIGRFAM | TIGR01549 | HAD-SF-IA-v1: HAD hydrolase, family IA, variant 1 | 119 | 213 | 8.0E-12 |
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:0016787 | hydrolase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K01097 (N-acylneuraminate-9-phosphatase)
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.
