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.t4 TTS g16098.t4 8144689 8144689
chr_4 g16098 g16098.t4 isoform g16098.t4 8144718 8146084
chr_4 g16098 g16098.t4 exon g16098.t4.exon1 8144718 8144990
chr_4 g16098 g16098.t4 cds g16098.t4.CDS1 8144718 8144990
chr_4 g16098 g16098.t4 exon g16098.t4.exon2 8145049 8145304
chr_4 g16098 g16098.t4 cds g16098.t4.CDS2 8145049 8145304
chr_4 g16098 g16098.t4 exon g16098.t4.exon3 8145360 8145545
chr_4 g16098 g16098.t4 cds g16098.t4.CDS3 8145360 8145535
chr_4 g16098 g16098.t4 exon g16098.t4.exon4 8145900 8145955
chr_4 g16098 g16098.t4 exon g16098.t4.exon5 8146027 8146084
chr_4 g16098 g16098.t4 TSS g16098.t4 8146097 8146097

Sequences

>g16098.t4 Gene=g16098 Length=829
ATGTTTATCGATAAAGAAGCAATTTATAAATCATTAGAATGGCATAGCAGTCCTGTTGAC
TGGTGTGAGCCAAATTATCAAATACTTTCTTATGTAGCCGAATTTTATAATACTCTGTCT
CATCATGGTTTTTGTGCCACCCATAGCAATTTATTTATTTAGAAATTATGCAAAAGCTGT
CAATTGTGGTATACAAGCTATAATGTTTATGCTGATTGTGGTTGGAGTGACATCAATGTA
TTTTCATGGAACACTTTCATTAATGGGACAATTACTTGATGAACTATCAATATTATGGGT
TTATGCCCTTGGAGTTTGTCTCTATTGTCCATCAAAATATATTCCAAAGTCAATGTGTAG
AAAAAAATTTTCAGTTGTAATCACGGCAATTGCTTTGATGTTCACAGTCTTATCAGTTTG
GAAGCCTTTTGTCAATGCTTTTGCTCAAATGTCACTAACAATACCGATTATCTATTATGT
ATCAACAGAGATTAAGAATCTCAAAAGAAATGAAAAAGAAGTGTACAAAATTGGTGTAAA
AACACTTGTCATGGGTATCACTGCAGTTATTCTTTGGTTCAATGATAGACTTTTTTGTGA
ATTTTACAAATCGTATGGAATAATTTATTTGCATGCTATTTGGCATATTCTCAGTTTCAC
TGCTTCATATTATGCTTCATGTCTTACTGCATACTTTTTTGTTAAATTAGAAAAACCATC
AATTACATGTGAAATTGCTTACTGGCCAAATAATTGCAATTTTAAAATGTTTTGTATTCC
ATACGTTGAAATTATAAGTGATAAAAAAGTTAAGAAAAAGAAAAATTAA

>g16098.t4 Gene=g16098 Length=234
MVFVPPIAIYLFRNYAKAVNCGIQAIMFMLIVVGVTSMYFHGTLSLMGQLLDELSILWVY
ALGVCLYCPSKYIPKSMCRKKFSVVITAIALMFTVLSVWKPFVNAFAQMSLTIPIIYYVS
TEIKNLKRNEKEVYKIGVKTLVMGITAVILWFNDRLFCEFYKSYGIIYLHAIWHILSFTA
SYYASCLTAYFFVKLEKPSITCEIAYWPNNCNFKMFCIPYVEIISDKKVKKKKN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g16098.t4 PANTHER PTHR46139 ALKALINE CERAMIDASE 2 228 2.5E-65
1 g16098.t4 Pfam PF05875 Ceramidase 2 216 3.1E-33
10 g16098.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 20 -
19 g16098.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 21 42 -
13 g16098.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 43 53 -
21 g16098.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 54 70 -
11 g16098.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 71 81 -
20 g16098.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 82 99 -
15 g16098.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 100 104 -
18 g16098.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 105 121 -
9 g16098.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 122 132 -
16 g16098.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 133 152 -
14 g16098.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 153 171 -
17 g16098.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 172 193 -
12 g16098.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 194 234 -
7 g16098.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 21 43 -
4 g16098.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 53 70 -
8 g16098.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 82 99 -
6 g16098.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 103 120 -
5 g16098.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 133 151 -
3 g16098.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 171 193 -

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