General information for g16537.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Ceramide phosphoethanolamine synthase.
Parent gene
- The parent gene g16537 is located on chr_4: 9847078..9848958 (- 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 | g16537 | g16537.t3 | TTS | g16537.t3 | 9844911 | 9844911 |
| chr_4 | g16537 | g16537.t3 | isoform | g16537.t3 | 9845599 | 9847020 |
| chr_4 | g16537 | g16537.t3 | exon | g16537.t3.exon1 | 9845599 | 9846144 |
| chr_4 | g16537 | g16537.t3 | cds | g16537.t3.CDS1 | 9845923 | 9846144 |
| chr_4 | g16537 | g16537.t3 | exon | g16537.t3.exon2 | 9846207 | 9846455 |
| chr_4 | g16537 | g16537.t3 | cds | g16537.t3.CDS2 | 9846207 | 9846455 |
| chr_4 | g16537 | g16537.t3 | exon | g16537.t3.exon3 | 9846632 | 9847020 |
| chr_4 | g16537 | g16537.t3 | cds | g16537.t3.CDS3 | 9846632 | 9846994 |
| chr_4 | g16537 | g16537.t3 | TSS | g16537.t3 | NA | NA |
Sequences
>g16537.t3 Gene=g16537 Length=1184
TCTGCGATGTAACAGTAAAAGCTTTAATGCTTGACCACACAAACCATTATCTTTTTGCAC
CACTTGCAGTTTTATTCGACGATCTCGTTGGCTTCAGCCGCCATGATGTGATCACACCAA
ACATGATTTCATTTTTTCATGTTTTTGTTGCCATAATTTCTGGTCGCATGATTGCCAGCG
ATAGTTTGTCATTTCGTCGTTTTGGTGTAGTACTTTTTCAAGTGAGAACATTTTTGGATG
ACTTAGATGGACATGTGGCAAGAGCAAAGCGACATATTCGTGGTGAAAGAAGTGAAATTG
GAACAATGGGTTACTATGTCGATGGCATTTGTGATGGCCTTGGATGCATTGCACTTATGA
TTGGTGTTTTTGTCTTTTTGAGAAATAATCCACCACGTCGAGGTTATACCCAGCTTCAAT
CAATAATCCCAGTAAATGACTCAAAATCATCAGAATCAGGAGTGATATATAAAGTCAAAG
TAACGACAAAAAAAGTTATGAGAAAAGTTGGTTATTTCACAGCAGCACTTTTATTGAGCT
CAACAGCATGGAATAGATACATTGCTTACTATCAAGATATTCTCGAAAAAAATGATGTTA
CACCAGCTCAATTTGCAAGACAAAATTATGTGATGAAGTCCGCATGGTTTTTCATCGTAG
CCTGGTTTTGGCGAATAGTGAACGTTCATGCACTTCTTCATCTGCTTCTGTTGAGTATTT
TCTGTGATAAACTATGGGATTTCCTTAAGGCCATGCAGTATTCGTGTTTTGTTTTCCTTT
TAATTGTCATTTGTGGTACTGAATTGCATTTATGGGAGGCACAAAAGTTTATTTTTAAAA
CACTTGTGAGTGGAGGATAAAAAAGTAAAAATATTCATAAAATCAGAACCTAAAAAGCAA
CCCAAAGTGAAAAGATCAAAAAATCTTTTTGAAAACAATCGAAAAACTCAGGAATGAAAA
AGAACATTCACATCATTTGAAAATTCCTGTAGCTTACAGTTTTGCGCCTTGCCTGAAGAA
AAAAAAAATCACATTTATGCACATAAGAGAGATAAAAAATTTGTAAATGAAAGTTTTTGA
ATTGTGAATCAAATTTTATAATTTTTTTTCAATTTACCAAAGTTTTTTTCTTATGTTTCA
AAATTTAAAAATTTTTGTTTACAAATTTTGCTGTATTGGAAATT
>g16537.t3 Gene=g16537 Length=277
MLDHTNHYLFAPLAVLFDDLVGFSRHDVITPNMISFFHVFVAIISGRMIASDSLSFRRFG
VVLFQVRTFLDDLDGHVARAKRHIRGERSEIGTMGYYVDGICDGLGCIALMIGVFVFLRN
NPPRRGYTQLQSIIPVNDSKSSESGVIYKVKVTTKKVMRKVGYFTAALLLSSTAWNRYIA
YYQDILEKNDVTPAQFARQNYVMKSAWFFIVAWFWRIVNVHALLHLLLLSIFCDKLWDFL
KAMQYSCFVFLLIVICGTELHLWEAQKFIFKTLVSGG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g16537.t3 | Gene3D | G3DSA:1.20.120.1760 | - | 7 | 136 | 2.0E-12 |
| 9 | g16537.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 32 | - |
| 16 | g16537.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 33 | 50 | - |
| 10 | g16537.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 51 | 95 | - |
| 13 | g16537.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 96 | 118 | - |
| 7 | g16537.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 119 | 160 | - |
| 17 | g16537.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 161 | 180 | - |
| 12 | g16537.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 181 | 205 | - |
| 15 | g16537.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 206 | 233 | - |
| 8 | g16537.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 234 | 244 | - |
| 14 | g16537.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 245 | 263 | - |
| 11 | g16537.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 264 | 277 | - |
| 3 | g16537.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 28 | 50 | - |
| 1 | g16537.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 96 | 118 | - |
| 5 | g16537.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 161 | 180 | - |
| 4 | g16537.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 210 | 232 | - |
| 2 | g16537.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 245 | 263 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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.
