General information for g12595.t4
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.t4 | TSS | g12595.t4 | 24712885 | 24712885 |
| chr_1 | g12595 | g12595.t4 | isoform | g12595.t4 | 24712948 | 24714890 |
| chr_1 | g12595 | g12595.t4 | exon | g12595.t4.exon1 | 24712948 | 24713281 |
| chr_1 | g12595 | g12595.t4 | cds | g12595.t4.CDS1 | 24712948 | 24713281 |
| chr_1 | g12595 | g12595.t4 | exon | g12595.t4.exon2 | 24713345 | 24713729 |
| chr_1 | g12595 | g12595.t4 | cds | g12595.t4.CDS2 | 24713345 | 24713729 |
| chr_1 | g12595 | g12595.t4 | exon | g12595.t4.exon3 | 24713837 | 24714890 |
| chr_1 | g12595 | g12595.t4 | cds | g12595.t4.CDS3 | 24713837 | 24714008 |
| chr_1 | g12595 | g12595.t4 | TTS | g12595.t4 | NA | NA |
Sequences
>g12595.t4 Gene=g12595 Length=1773
ATGAATGAAAGTATAAATCTGTTAGTGCCATTACGTGAGCTTTCAAAGTACTTTTTAGAG
TGTCGTTCAAAAGCAGAAGAAGCGCTGGAGCTATTAATTTTATCAACAATTATCTTCATC
ATTTTCAATGTCATTTTATTCTACCTAATTCATAATTTTCGCAATGGTAAGAGCAAATTT
CGGTTCTTTCGTTCAACAAAACTTCCCGAAAATGTCTCGCGAGTGCTTTTAGTGACAGCT
CATCCAGATGACGAATGTATGTTTTTCGGGCCAACATTAATTGCATTAAAAAAAAACCAA
AATTGTAGAATTTTTGTGCTATGCATGTCTAAAGGCGATCACGAGAAACTTGGAAATGTT
CGTAAAGATGAACTTTGGAATGCATGTCGTTGCTTAGATATTCAACCACAAGACATTACT
CTTACTCACTGCACCAATTTACCAGACGATCCAAATACAGAGTGGAAAGTAGAATTACTT
TCTTCACTCATTCTTAATCAAGTAGAAGCATTAGATATAGACTTAGTGATTACATTTGAC
AAGGATGGCGTGAGTCAACACAAAAATCATCAAGCACTTTACTATGCTGTTGCATCGCTT
TGTCTCTCTGGCCTTATGCCATCAACTTGTCGTATTTTAATTCTAGAGACTGTCAACATC
ATACGCAAGTATTTATCCTTCTTCGATGTTCTTCTTAGTCTTCTATTATCAACAAACTGG
TCAATCATGCGATTGCACGAGCGGCAATTAATAAAATCAGCAATGTGCCAGCACATCTCA
CAAATGGTCTGGTTCCGTAAACTTTATATAATATTTTCACGTTATATGATTATCAACTCA
TTGACTGAACTTAATGTAGAATCAATTGAATTTGACATTCTTGAGAGCTGAATTGATGTC
AATAACACCTGTATCTATTCATCTTAGTTCCTTCATTATTTGCTAAGTTAGTTCAAATTT
ATCAATATTTAACAACAATGACAAGAAAATAACAGTAAATAAAAGAATATTACAATTATC
GAGATTTTCCCACACGATAATGAGGCGAGAAAATGTTTTCATATATGTATTATTTACTTG
TTTATTACGAACAATTTACAGAATTTTTGAAAGCAGTCAGAGTGTGGGCATTTCACGAAT
AAATTGAAAAATTCTTCCAAAAATAAGTCTTCGAAATGAAACTCAAGTTTTCCAAGTGTT
GATCAAAAAAGAAATAAAAACAAATTTATGTGTGAATGAGAAAATAATTTGAATCGTCAG
CGAAATATGCGCGCAAACAGAAGTCACTGGTAAGAATTAGATTTATCACATTTTGATTAT
TGAAGCGGATGTTGAGAGAAAAAAGAATATCGTGAAGCACACTTTACACATCAGTAATTT
TCATGATTTATTTATTTTATAATTTGTTAGCTATCAAATAGAAAAATTACAGTCATTTGT
ACATAGATTCAATTTTTATTTTGATGACAGAATTTTTGAAAATATTTTCTTTTTTGAAAA
AAAGTTACTCAAAGTTGAATTGAATTTTCTGTTTTTCAACTCGATGTAACAAGAAAAACA
TTTTCATTGAATTCAAATGGCATTGACAACATTGAATGTAGCAAACACAATAATGAATTC
TTTCATTGATTGACAATATTACATTCTAAACATACGTATTTCGTGATACATGCTTGTGCA
TTTGAATTGAGAATTGAGTTTAAAAAATGTTAGCCATAAAATATTCTCATTTTTTTGATA
AAAATTTTTATGTGTTTAATGTCATGCTTGAGT
>g12595.t4 Gene=g12595 Length=296
MNESINLLVPLRELSKYFLECRSKAEEALELLILSTIIFIIFNVILFYLIHNFRNGKSKF
RFFRSTKLPENVSRVLLVTAHPDDECMFFGPTLIALKKNQNCRIFVLCMSKGDHEKLGNV
RKDELWNACRCLDIQPQDITLTHCTNLPDDPNTEWKVELLSSLILNQVEALDIDLVITFD
KDGVSQHKNHQALYYAVASLCLSGLMPSTCRILILETVNIIRKYLSFFDVLLSLLLSTNW
SIMRLHERQLIKSAMCQHISQMVWFRKLYIIFSRYMIINSLTELNVESIEFDILES
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g12595.t4 | Gene3D | G3DSA:3.40.50.10320 | - | 64 | 255 | 5.4E-20 |
| 2 | g12595.t4 | PANTHER | PTHR12993 | N-ACETYLGLUCOSAMINYL-PHOSPHATIDYLINOSITOL DE-N-ACETYLASE-RELATED | 32 | 285 | 8.6E-69 |
| 3 | g12595.t4 | PANTHER | PTHR12993:SF11 | N-ACETYLGLUCOSAMINYL-PHOSPHATIDYLINOSITOL DE-N-ACETYLASE | 32 | 285 | 8.6E-69 |
| 1 | g12595.t4 | Pfam | PF02585 | GlcNAc-PI de-N-acetylase | 76 | 199 | 1.6E-24 |
| 11 | g12595.t4 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 30 | - |
| 15 | g12595.t4 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 31 | 50 | - |
| 10 | g12595.t4 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 51 | 191 | - |
| 14 | g12595.t4 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 192 | 214 | - |
| 12 | g12595.t4 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 215 | 219 | - |
| 13 | g12595.t4 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 220 | 242 | - |
| 9 | g12595.t4 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 243 | 296 | - |
| 7 | g12595.t4 | SUPERFAMILY | SSF102588 | LmbE-like | 74 | 281 | 1.7E-46 |
| 6 | g12595.t4 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 28 | 50 | - |
| 4 | g12595.t4 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 193 | 215 | - |
| 5 | g12595.t4 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 225 | 242 | - |
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.
