Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Alkaline ceramidase.

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_4 g16098 g16098.t3 TTS g16098.t3 8144689 8144689
chr_4 g16098 g16098.t3 isoform g16098.t3 8144718 8146084
chr_4 g16098 g16098.t3 exon g16098.t3.exon1 8144718 8144990
chr_4 g16098 g16098.t3 cds g16098.t3.CDS1 8144718 8144990
chr_4 g16098 g16098.t3 exon g16098.t3.exon2 8145049 8145304
chr_4 g16098 g16098.t3 cds g16098.t3.CDS2 8145049 8145304
chr_4 g16098 g16098.t3 exon g16098.t3.exon3 8145360 8145513
chr_4 g16098 g16098.t3 cds g16098.t3.CDS3 8145360 8145457
chr_4 g16098 g16098.t3 exon g16098.t3.exon4 8145900 8145955
chr_4 g16098 g16098.t3 exon g16098.t3.exon5 8146027 8146084
chr_4 g16098 g16098.t3 TSS g16098.t3 8146097 8146097

Sequences

>g16098.t3 Gene=g16098 Length=797
ATGTTTATCGATAAAGAAGCAATTTATAAATCATTAGAATGGCATAGCAGTCCTGTTGAC
TGGTGTGAGCCAAATTATCAAATACTTTCTTATGTAGCCGAATTTTATAATACTCAATTT
ATTTATTTAGAAATTATGCAAAAGCTGTCAATTGTGGTATACAAGCTATAATGTTTATGC
TGATTGTGGTTGGAGTGACATCAATGTATTTTCATGGAACACTTTCATTAATGGGACAAT
TACTTGATGAACTATCAATATTATGGGTTTATGCCCTTGGAGTTTGTCTCTATTGTCCAT
CAAAATATATTCCAAAGTCAATGTGTAGAAAAAAATTTTCAGTTGTAATCACGGCAATTG
CTTTGATGTTCACAGTCTTATCAGTTTGGAAGCCTTTTGTCAATGCTTTTGCTCAAATGT
CACTAACAATACCGATTATCTATTATGTATCAACAGAGATTAAGAATCTCAAAAGAAATG
AAAAAGAAGTGTACAAAATTGGTGTAAAAACACTTGTCATGGGTATCACTGCAGTTATTC
TTTGGTTCAATGATAGACTTTTTTGTGAATTTTACAAATCGTATGGAATAATTTATTTGC
ATGCTATTTGGCATATTCTCAGTTTCACTGCTTCATATTATGCTTCATGTCTTACTGCAT
ACTTTTTTGTTAAATTAGAAAAACCATCAATTACATGTGAAATTGCTTACTGGCCAAATA
ATTGCAATTTTAAAATGTTTTGTATTCCATACGTTGAAATTATAAGTGATAAAAAAGTTA
AGAAAAAGAAAAATTAA

>g16098.t3 Gene=g16098 Length=208
MFMLIVVGVTSMYFHGTLSLMGQLLDELSILWVYALGVCLYCPSKYIPKSMCRKKFSVVI
TAIALMFTVLSVWKPFVNAFAQMSLTIPIIYYVSTEIKNLKRNEKEVYKIGVKTLVMGIT
AVILWFNDRLFCEFYKSYGIIYLHAIWHILSFTASYYASCLTAYFFVKLEKPSITCEIAY
WPNNCNFKMFCIPYVEIISDKKVKKKKN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g16098.t3 PANTHER PTHR46139 ALKALINE CERAMIDASE 2 202 6.8E-57
1 g16098.t3 Pfam PF05875 Ceramidase 2 190 3.9E-31
15 g16098.t3 Phobius SIGNAL_PEPTIDE Signal peptide region 1 19 -
16 g16098.t3 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 3 -
17 g16098.t3 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 4 14 -
23 g16098.t3 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 15 19 -
13 g16098.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 20 28 -
21 g16098.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 29 47 -
10 g16098.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 48 55 -
19 g16098.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 56 73 -
14 g16098.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 74 78 -
22 g16098.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 79 95 -
11 g16098.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 96 106 -
20 g16098.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 107 126 -
12 g16098.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 127 145 -
18 g16098.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 146 167 -
9 g16098.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 168 208 -
7 g16098.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 2 24 -
6 g16098.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 28 47 -
5 g16098.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 56 73 -
8 g16098.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 77 94 -
4 g16098.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 107 125 -
3 g16098.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 145 167 -

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:0016811 hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides MF
GO:0016021 integral component of membrane CC
GO:0006672 ceramide metabolic process BP

KEGG

Orthology

This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).

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. There were no conditions that were differentially expressed