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.t2 TTS g16098.t2 8144689 8144689
chr_4 g16098 g16098.t2 isoform g16098.t2 8144718 8145304
chr_4 g16098 g16098.t2 exon g16098.t2.exon1 8144718 8144990
chr_4 g16098 g16098.t2 cds g16098.t2.CDS1 8144718 8144990
chr_4 g16098 g16098.t2 exon g16098.t2.exon2 8145049 8145304
chr_4 g16098 g16098.t2 cds g16098.t2.CDS2 8145049 8145252
chr_4 g16098 g16098.t2 TSS g16098.t2 8146097 8146097

Sequences

>g16098.t2 Gene=g16098 Length=529
TTATGCCCTTGGAGTTTGTCTCTATTGTCCATCAAAATATATTCCAAAGTCAATGTGTAG
AAAAAAATTTTCAGTTGTAATCACGGCAATTGCTTTGATGTTCACAGTCTTATCAGTTTG
GAAGCCTTTTGTCAATGCTTTTGCTCAAATGTCACTAACAATACCGATTATCTATTATGT
ATCAACAGAGATTAAGAATCTCAAAAGAAATGAAAAAGAAGTGTACAAAATTGGTGTAAA
AACACTTGTCATGGGTATCACTGCAGTTATTCTTTGGTTCAATGATAGACTTTTTTGTGA
ATTTTACAAATCGTATGGAATAATTTATTTGCATGCTATTTGGCATATTCTCAGTTTCAC
TGCTTCATATTATGCTTCATGTCTTACTGCATACTTTTTTGTTAAATTAGAAAAACCATC
AATTACATGTGAAATTGCTTACTGGCCAAATAATTGCAATTTTAAAATGTTTTGTATTCC
ATACGTTGAAATTATAAGTGATAAAAAAGTTAAGAAAAAGAAAAATTAA

>g16098.t2 Gene=g16098 Length=158
MCRKKFSVVITAIALMFTVLSVWKPFVNAFAQMSLTIPIIYYVSTEIKNLKRNEKEVYKI
GVKTLVMGITAVILWFNDRLFCEFYKSYGIIYLHAIWHILSFTASYYASCLTAYFFVKLE
KPSITCEIAYWPNNCNFKMFCIPYVEIISDKKVKKKKN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g16098.t2 PANTHER PTHR46139:SF3 ALKALINE CERAMIDASE 3 152 8.3E-35
3 g16098.t2 PANTHER PTHR46139 ALKALINE CERAMIDASE 3 152 8.3E-35
1 g16098.t2 Pfam PF05875 Ceramidase 3 140 2.8E-16
9 g16098.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 6 -
16 g16098.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 7 23 -
12 g16098.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 24 28 -
14 g16098.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 29 45 -
10 g16098.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 46 56 -
15 g16098.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 57 76 -
13 g16098.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 77 95 -
17 g16098.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 96 117 -
11 g16098.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 118 158 -
8 g16098.t2 SignalP_GRAM_POSITIVE SignalP-TM SignalP-TM 1 31 -
7 g16098.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 5 22 -
5 g16098.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 26 45 -
6 g16098.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 57 75 -
4 g16098.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 95 117 -

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