Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative N-acetylglucosaminyl-phosphatidylinositol de-N-acetylase.

Parent gene

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.t2 TSS g12595.t2 24712885 24712885
chr_1 g12595 g12595.t2 isoform g12595.t2 24712948 24714008
chr_1 g12595 g12595.t2 exon g12595.t2.exon1 24712948 24713281
chr_1 g12595 g12595.t2 cds g12595.t2.CDS1 24712948 24713281
chr_1 g12595 g12595.t2 exon g12595.t2.exon2 24713345 24714008
chr_1 g12595 g12595.t2 cds g12595.t2.CDS2 24713345 24713733
chr_1 g12595 g12595.t2 TTS g12595.t2 24714159 24714159

Sequences

>g12595.t2 Gene=g12595 Length=998
ATGAATGAAAGTATAAATCTGTTAGTGCCATTACGTGAGCTTTCAAAGTACTTTTTAGAG
TGTCGTTCAAAAGCAGAAGAAGCGCTGGAGCTATTAATTTTATCAACAATTATCTTCATC
ATTTTCAATGTCATTTTATTCTACCTAATTCATAATTTTCGCAATGGTAAGAGCAAATTT
CGGTTCTTTCGTTCAACAAAACTTCCCGAAAATGTCTCGCGAGTGCTTTTAGTGACAGCT
CATCCAGATGACGAATGTATGTTTTTCGGGCCAACATTAATTGCATTAAAAAAAAACCAA
AATTGTAGAATTTTTGTGCTATGCATGTCTAAAGGCGATCACGAGAAACTTGGAAATGTT
CGTAAAGATGAACTTTGGAATGCATGTCGTTGCTTAGATATTCAACCACAAGACATTACT
CTTACTCACTGCACCAATTTACCAGACGATCCAAATACAGAGTGGAAAGTAGAATTACTT
TCTTCACTCATTCTTAATCAAGTAGAAGCATTAGATATAGACTTAGTGATTACATTTGAC
AAGGATGGCGTGAGTCAACACAAAAATCATCAAGCACTTTACTATGCTGTTGCATCGCTT
TGTCTCTCTGGCCTTATGCCATCAACTTGTCGTATTTTAATTCTAGAGACTGTCAACATC
ATACGCAAGTATTTATCCTTCTTCGATGTTCTTCTTAGTCTTCTATTATCAACAAACTGG
TGAGTTTTGAGCTTCATTGAACTGTAAATTTTGCAACTGATTGCGTCTCGTGATGAATTT
CACATGTTATATACATAAAAAACCTTTATCAATTTCTCCCACTTAGGTCAATCATGCGAT
TGCACGAGCGGCAATTAATAAAATCAGCAATGTGCCAGCACATCTCACAAATGGTCTGGT
TCCGTAAACTTTATATAATATTTTCACGTTATATGATTATCAACTCATTGACTGAACTTA
ATGTAGAATCAATTGAATTTGACATTCTTGAGAGCTGA

>g12595.t2 Gene=g12595 Length=240
MNESINLLVPLRELSKYFLECRSKAEEALELLILSTIIFIIFNVILFYLIHNFRNGKSKF
RFFRSTKLPENVSRVLLVTAHPDDECMFFGPTLIALKKNQNCRIFVLCMSKGDHEKLGNV
RKDELWNACRCLDIQPQDITLTHCTNLPDDPNTEWKVELLSSLILNQVEALDIDLVITFD
KDGVSQHKNHQALYYAVASLCLSGLMPSTCRILILETVNIIRKYLSFFDVLLSLLLSTNW

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g12595.t2 Gene3D G3DSA:3.40.50.10320 - 64 224 3.9E-20
2 g12595.t2 PANTHER PTHR12993 N-ACETYLGLUCOSAMINYL-PHOSPHATIDYLINOSITOL DE-N-ACETYLASE-RELATED 32 236 1.2E-54
3 g12595.t2 PANTHER PTHR12993:SF11 N-ACETYLGLUCOSAMINYL-PHOSPHATIDYLINOSITOL DE-N-ACETYLASE 32 236 1.2E-54
1 g12595.t2 Pfam PF02585 GlcNAc-PI de-N-acetylase 76 199 9.5E-25
10 g12595.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 30 -
14 g12595.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 31 50 -
9 g12595.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 51 191 -
13 g12595.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 192 214 -
11 g12595.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 215 219 -
12 g12595.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 220 238 -
8 g12595.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 239 240 -
6 g12595.t2 SUPERFAMILY SSF102588 LmbE-like 74 230 1.15E-38
5 g12595.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 28 50 -
4 g12595.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 193 215 -

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

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.

Raw TPM values