General information for g12595.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative N-acetylglucosaminyl-phosphatidylinositol de-N-acetylase.
Parent gene
- The parent gene g12595 is located on chr_1: 24712948..24714890 (+ 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 | g12595 | g12595.t1 | TSS | g12595.t1 | 24712885 | 24712885 |
| chr_1 | g12595 | g12595.t1 | isoform | g12595.t1 | 24712948 | 24714008 |
| chr_1 | g12595 | g12595.t1 | exon | g12595.t1.exon1 | 24712948 | 24713113 |
| chr_1 | g12595 | g12595.t1 | cds | g12595.t1.CDS1 | 24712948 | 24713113 |
| chr_1 | g12595 | g12595.t1 | exon | g12595.t1.exon2 | 24713180 | 24713281 |
| chr_1 | g12595 | g12595.t1 | cds | g12595.t1.CDS2 | 24713180 | 24713281 |
| chr_1 | g12595 | g12595.t1 | exon | g12595.t1.exon3 | 24713345 | 24713729 |
| chr_1 | g12595 | g12595.t1 | cds | g12595.t1.CDS3 | 24713345 | 24713729 |
| chr_1 | g12595 | g12595.t1 | exon | g12595.t1.exon4 | 24713837 | 24714008 |
| chr_1 | g12595 | g12595.t1 | cds | g12595.t1.CDS4 | 24713837 | 24714008 |
| chr_1 | g12595 | g12595.t1 | TTS | g12595.t1 | 24714159 | 24714159 |
Sequences
>g12595.t1 Gene=g12595 Length=825
ATGAATGAAAGTATAAATCTGTTAGTGCCATTACGTGAGCTTTCAAAGTACTTTTTAGAG
TGTCGTTCAAAAGCAGAAGAAGCGCTGGAGCTATTAATTTTATCAACAATTATCTTCATC
ATTTTCAATGTCATTTTATTCTACCTAATTCATAATTTTCGCAATGTGACAGCTCATCCA
GATGACGAATGTATGTTTTTCGGGCCAACATTAATTGCATTAAAAAAAAACCAAAATTGT
AGAATTTTTGTGCTATGCATGTCTAAAGGCGATCACGAGAAACTTGGAAATGTTCGTAAA
GATGAACTTTGGAATGCATGTCGTTGCTTAGATATTCAACCACAAGACATTACTCTTACT
CACTGCACCAATTTACCAGACGATCCAAATACAGAGTGGAAAGTAGAATTACTTTCTTCA
CTCATTCTTAATCAAGTAGAAGCATTAGATATAGACTTAGTGATTACATTTGACAAGGAT
GGCGTGAGTCAACACAAAAATCATCAAGCACTTTACTATGCTGTTGCATCGCTTTGTCTC
TCTGGCCTTATGCCATCAACTTGTCGTATTTTAATTCTAGAGACTGTCAACATCATACGC
AAGTATTTATCCTTCTTCGATGTTCTTCTTAGTCTTCTATTATCAACAAACTGGTCAATC
ATGCGATTGCACGAGCGGCAATTAATAAAATCAGCAATGTGCCAGCACATCTCACAAATG
GTCTGGTTCCGTAAACTTTATATAATATTTTCACGTTATATGATTATCAACTCATTGACT
GAACTTAATGTAGAATCAATTGAATTTGACATTCTTGAGAGCTGA
>g12595.t1 Gene=g12595 Length=274
MNESINLLVPLRELSKYFLECRSKAEEALELLILSTIIFIIFNVILFYLIHNFRNVTAHP
DDECMFFGPTLIALKKNQNCRIFVLCMSKGDHEKLGNVRKDELWNACRCLDIQPQDITLT
HCTNLPDDPNTEWKVELLSSLILNQVEALDIDLVITFDKDGVSQHKNHQALYYAVASLCL
SGLMPSTCRILILETVNIIRKYLSFFDVLLSLLLSTNWSIMRLHERQLIKSAMCQHISQM
VWFRKLYIIFSRYMIINSLTELNVESIEFDILES
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g12595.t1 | Gene3D | G3DSA:3.40.50.10320 | - | 52 | 233 | 3.7E-16 |
| 2 | g12595.t1 | PANTHER | PTHR12993 | N-ACETYLGLUCOSAMINYL-PHOSPHATIDYLINOSITOL DE-N-ACETYLASE-RELATED | 32 | 263 | 8.9E-64 |
| 3 | g12595.t1 | PANTHER | PTHR12993:SF11 | N-ACETYLGLUCOSAMINYL-PHOSPHATIDYLINOSITOL DE-N-ACETYLASE | 32 | 263 | 8.9E-64 |
| 1 | g12595.t1 | Pfam | PF02585 | GlcNAc-PI de-N-acetylase | 56 | 177 | 7.0E-24 |
| 11 | g12595.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 30 | - |
| 14 | g12595.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 31 | 50 | - |
| 9 | g12595.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 51 | 169 | - |
| 15 | g12595.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 170 | 192 | - |
| 12 | g12595.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 193 | 197 | - |
| 13 | g12595.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 198 | 220 | - |
| 10 | g12595.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 221 | 274 | - |
| 7 | g12595.t1 | SUPERFAMILY | SSF102588 | LmbE-like | 56 | 259 | 2.22E-44 |
| 6 | g12595.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 28 | 50 | - |
| 5 | g12595.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 171 | 193 | - |
| 4 | g12595.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 203 | 220 | - |
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:0006506 | GPI anchor biosynthetic process | BP |
| GO:0000225 | N-acetylglucosaminylphosphatidylinositol deacetylase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K03434 (N-acetylglucosaminylphosphatidylinositol deacetylase)
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.
