General information for g15301.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Neutral ceramidase.
Parent gene
- The parent gene g15301 is located on chr_4: 4893753..4895783 (+ 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_4 | g15301 | g15301.t2 | isoform | g15301.t2 | 4887569 | 4895783 |
| chr_4 | g15301 | g15301.t2 | exon | g15301.t2.exon1 | 4887569 | 4887765 |
| chr_4 | g15301 | g15301.t2 | TSS | g15301.t2 | 4887572 | 4887572 |
| chr_4 | g15301 | g15301.t2 | TTS | g15301.t2 | 4888284 | 4888284 |
| chr_4 | g15301 | g15301.t2 | exon | g15301.t2.exon2 | 4892898 | 4893056 |
| chr_4 | g15301 | g15301.t2 | cds | g15301.t2.CDS1 | 4892943 | 4893056 |
| chr_4 | g15301 | g15301.t2 | exon | g15301.t2.exon3 | 4893470 | 4893686 |
| chr_4 | g15301 | g15301.t2 | cds | g15301.t2.CDS2 | 4893470 | 4893686 |
| chr_4 | g15301 | g15301.t2 | exon | g15301.t2.exon4 | 4893747 | 4894520 |
| chr_4 | g15301 | g15301.t2 | cds | g15301.t2.CDS3 | 4893747 | 4894520 |
| chr_4 | g15301 | g15301.t2 | exon | g15301.t2.exon5 | 4894603 | 4894796 |
| chr_4 | g15301 | g15301.t2 | cds | g15301.t2.CDS4 | 4894603 | 4894796 |
| chr_4 | g15301 | g15301.t2 | exon | g15301.t2.exon6 | 4894974 | 4895783 |
| chr_4 | g15301 | g15301.t2 | cds | g15301.t2.CDS5 | 4894974 | 4895783 |
Sequences
>g15301.t2 Gene=g15301 Length=2351
GTTTAGTCTTCTTCGAGCTGCTCAACTGAACAAACGCGGAATAAATTTCTGCTCTCTATT
GTTTGTGTTTAAAATTAAATTTTTTGTTATGATATTTTGAAATGTGTGAAATTTGATGAT
TTGATAAGAAATTTATTGAGTAATTGAGAAGCAAATTATAAAAAATTGTTTGAAGTAAAA
GTTGGATTTATTAAGAAGTATTAAAGTTAATATTTAGTCTGTCAACGATTAAAAAAATAA
CAATGGGAAGAATTTTCATCATTCTGTTAGCTTTTTTATTGATAAAATCATTATCAGCAT
ACAATATTGGATTAGGTAGAGCTGATATCACAGGACCAAGTGTAGAAATTGCTTTTATGG
GCTACGCACAACTAAATCAACGTGGTCAAGGAATTCATACACGCCTCTATGCTCGAACAT
TTATTGTTGAAGATGAGCGACAAAATCGAATTGTTTTCGTCAGTGTTGATGCAGGAATGA
TTACACATGTCGTCAAACGAAACGTAATTCGAGAATTGCAAAAGAAATTTGGTGCAACTT
ATCGATTTGATAATGTCATGATTTCTGGAACTCACACACATAGTGGACCAGCAGGATTTC
ATCAATTTGTCCTTTATGATCTCACAGCCATGGGTTTTGTTGAGGAAACTTTCTATGCGA
TGGTTCGTGGTATAACACAGTCAATAATCAATGCTCATAATAACATGGTTGAAGGCAGAA
TTTTCCTATCTGAAACTGAAATTTTTGATGCAAACATCAATCGATCACCGCTGGCATATG
AAAACAATCCAGATGAAGAAAAAGCACAATATAGAGATAATGTTGATAAAACTTTGTTTC
AACTTCGATTTATGGATAAACAAAATAAAAAAATTCTTGGTGCTTTTAATTGGTTTGCTG
TCCATGCAACATCAATGAATAATACAAATAAATTTATCTCATCTGATAATGTTGGTTATG
CATCGATGCTGCTTGAAAAAGAATACAATTATGACAGCATGGTTGGAAAAGGCAGCTTCG
TTGGTGCTTTTTGTTCTGCTAATTTAGGTGATGTCTCACCAAATATTATGGGACCAAAAT
GTCTTTCAACAGGATTACCATGCGATCCATTGACATCAAAATGTCCAAATAAAGACGTTT
GTGTTGCTTCTGGTCCAGGTAGAAATATTTATGAAAGTACAAGAATTATTGGTTCAAGAA
TTTACAAAGGTGCATCGAAATTGCTACAAGTGAAAGGTGGAAGAGAAGTTACTGGACCAT
TGTCATTTGTTCATCAATTTATTGATATGCCAAAGCAAACTGGAGTTTATTTTAATCCTA
AATTGAGAGGTTTACAGAATTACACTGGTTGTTATCCAGCAATGGGTTATTCATTTGCAG
CAGGTACAACTGATGGTCCAGGAGCTTTTGATTTTGCACAAGGAACTACAAGTGAAAATG
CTTTTTGGAATGCTGTTCGTGATTTTATTGCTGAACCAAGCATTCAAGACATTGCCTGTC
ATGGAAGTAAACCTATTTTAATAGCTACTGGACGTGCTGTTTATCCATATCTCTGGCAGC
CATCAGTTGTTCCTCTTCAAATTTTTGCCATCGGTGACCTTTTAATGTTCGGCCTACCTG
GTGAATTTACAACAATGGCTGGTCGTCGTTTAAAGAATGAAATTCAGCTTTTTGCCAAAA
GTCGATCTTATGAGTTTAACACAATTCTTTGTGGATTATCAAACATTTATACAAGTTATA
TAACAACACCAGAAGAATATGAAATTCAAAGATATGAAGGTGCAAGTACAATCTTTGGTC
CACATACATTGACAATTTATATAAATCGATTTATAAAACTACTTGATGCGATGTTAAGAG
GAGCAGCTGTCGATCCAGGTCCAATGCCAATTGATCAAGATTCAAAGCAAATTTCGCTAG
TGACAAAAGTTTATTATGATGGTCATGCAATTGGCAGTGGTTTTGGATATGTCGTGACAC
AACCAAAGAAAAGTTATAGAAGAGGCCAAATTGTGACTTGCAAATTTGTTGCTGGCAATC
CAAGAAATAATTTTATGACTGATTCAAGTTATTTCTTTGTTGAACGACTTGTTAGTAATG
GTGAATGGCAGATGGTAGCAACTGATGCAGATTGGGAAACAAAATTCAAATGGACACGAT
TGTCAATGATTCTTGGTAGAAGTGAAATTGAATTTATGTGGGAAATTCCAGAATCAACAC
CAAGTGGTGAATATCGTGTAAGACATCAAGGCTATTATCAATACATTCTTGGTGGTGTCT
ATTATTATCAAGGATCAACTGAACATTTCAATATTTTTGATGATAACAATTTGAGAAGAA
GAAATTTGTGA
>g15301.t2 Gene=g15301 Length=702
MGRIFIILLAFLLIKSLSAYNIGLGRADITGPSVEIAFMGYAQLNQRGQGIHTRLYARTF
IVEDERQNRIVFVSVDAGMITHVVKRNVIRELQKKFGATYRFDNVMISGTHTHSGPAGFH
QFVLYDLTAMGFVEETFYAMVRGITQSIINAHNNMVEGRIFLSETEIFDANINRSPLAYE
NNPDEEKAQYRDNVDKTLFQLRFMDKQNKKILGAFNWFAVHATSMNNTNKFISSDNVGYA
SMLLEKEYNYDSMVGKGSFVGAFCSANLGDVSPNIMGPKCLSTGLPCDPLTSKCPNKDVC
VASGPGRNIYESTRIIGSRIYKGASKLLQVKGGREVTGPLSFVHQFIDMPKQTGVYFNPK
LRGLQNYTGCYPAMGYSFAAGTTDGPGAFDFAQGTTSENAFWNAVRDFIAEPSIQDIACH
GSKPILIATGRAVYPYLWQPSVVPLQIFAIGDLLMFGLPGEFTTMAGRRLKNEIQLFAKS
RSYEFNTILCGLSNIYTSYITTPEEYEIQRYEGASTIFGPHTLTIYINRFIKLLDAMLRG
AAVDPGPMPIDQDSKQISLVTKVYYDGHAIGSGFGYVVTQPKKSYRRGQIVTCKFVAGNP
RNNFMTDSSYFFVERLVSNGEWQMVATDADWETKFKWTRLSMILGRSEIEFMWEIPESTP
SGEYRVRHQGYYQYILGGVYYYQGSTEHFNIFDDNNLRRRNL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g15301.t2 | Gene3D | G3DSA:2.60.40.2300 | - | 563 | 696 | 1.6E-41 |
| 3 | g15301.t2 | PANTHER | PTHR12670:SF1 | NEUTRAL CERAMIDASE-RELATED | 14 | 691 | 2.1E-261 |
| 4 | g15301.t2 | PANTHER | PTHR12670 | CERAMIDASE | 14 | 691 | 2.1E-261 |
| 1 | g15301.t2 | Pfam | PF04734 | Neutral/alkaline non-lysosomal ceramidase, N-terminal | 20 | 528 | 9.7E-207 |
| 2 | g15301.t2 | Pfam | PF17048 | Neutral/alkaline non-lysosomal ceramidase, C-terminal | 532 | 691 | 5.5E-50 |
| 8 | g15301.t2 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 19 | - |
| 9 | g15301.t2 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 3 | - |
| 10 | g15301.t2 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 4 | 14 | - |
| 11 | g15301.t2 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 15 | 19 | - |
| 7 | g15301.t2 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 20 | 702 | - |
| 5 | g15301.t2 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 19 | - |
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:0046514 | ceramide catabolic process | BP |
| GO:0017040 | N-acylsphingosine amidohydrolase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K12349 (neutral ceramidase)
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.
