General information for g12672.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Phospholipase B1, membrane-associated.
Parent gene
- The parent gene g12672 is located on chr_1: 25154704..25156467 (+ 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_1 | g12672 | g12672.t1 | TSS | g12672.t1 | 25154109 | 25154109 |
| chr_1 | g12672 | g12672.t1 | isoform | g12672.t1 | 25154704 | 25156467 |
| chr_1 | g12672 | g12672.t1 | exon | g12672.t1.exon1 | 25154704 | 25154889 |
| chr_1 | g12672 | g12672.t1 | cds | g12672.t1.CDS1 | 25154704 | 25154889 |
| chr_1 | g12672 | g12672.t1 | exon | g12672.t1.exon2 | 25155019 | 25155175 |
| chr_1 | g12672 | g12672.t1 | cds | g12672.t1.CDS2 | 25155019 | 25155175 |
| chr_1 | g12672 | g12672.t1 | exon | g12672.t1.exon3 | 25155239 | 25155283 |
| chr_1 | g12672 | g12672.t1 | cds | g12672.t1.CDS3 | 25155239 | 25155283 |
| chr_1 | g12672 | g12672.t1 | exon | g12672.t1.exon4 | 25155368 | 25155609 |
| chr_1 | g12672 | g12672.t1 | cds | g12672.t1.CDS4 | 25155368 | 25155609 |
| chr_1 | g12672 | g12672.t1 | exon | g12672.t1.exon5 | 25155674 | 25155836 |
| chr_1 | g12672 | g12672.t1 | cds | g12672.t1.CDS5 | 25155674 | 25155836 |
| chr_1 | g12672 | g12672.t1 | exon | g12672.t1.exon6 | 25155910 | 25155972 |
| chr_1 | g12672 | g12672.t1 | cds | g12672.t1.CDS6 | 25155910 | 25155972 |
| chr_1 | g12672 | g12672.t1 | exon | g12672.t1.exon7 | 25156040 | 25156285 |
| chr_1 | g12672 | g12672.t1 | cds | g12672.t1.CDS7 | 25156040 | 25156285 |
| chr_1 | g12672 | g12672.t1 | exon | g12672.t1.exon8 | 25156337 | 25156467 |
| chr_1 | g12672 | g12672.t1 | cds | g12672.t1.CDS8 | 25156337 | 25156467 |
| chr_1 | g12672 | g12672.t1 | TTS | g12672.t1 | NA | NA |
Sequences
>g12672.t1 Gene=g12672 Length=1233
ATGAAATATTCAATAACAATTTTTATCATTGCCACATGCTGGCTTCTTCCACATACTCAC
GCACAAATAACGTTCCTTGATGATCCAATATTTAGACCACTTTTTAGAAAAGTTAGAAAT
TTCTTTTTTCATAGCAATTATCAACAAACTGAAGAACAAATGCTTAGTATTAATAAAAAA
TTTAATACACTACAAAAGCAATTTAGCCCAAATGAACCATTTTTCTGTGATACAAAAAAT
TATTTAGTTCGTAGTTCATCAATACCTGATTCAGTTCATAAATTGCGACCAGGAGATATT
GATATAGTAGGAGCAATTGGTGATAGTTTAACTGCAGGAAATGGTGCATTAGCAACAAAT
GTTTTACAAGTTTCCCTCGAATACAAAGGCGTCTCATTTTCAATAGGCGGTGAAAAAACT
TGGCGTGAATTTTTAACAATTCCAAATATTTTAAAAGAATTTAATCCAAATATTTATGGA
TATGCAACAGGAACTGGATTATCAATTCATAGTTCTTCAAAATTTAATGTAGCAGAATTG
GGTGCAATGTCAAGAGATATGCCGCACATGACTAAAACATTAATTGAAAGAATGCAATCA
GATGAAAATGTGAAGCCACAACATTGGAAGTTAATTACATTTTTAGTTGGTGCAAATGAT
TTTTGTTTTGATATGTGCTACCATAAAAATCCACAAGAAATAGTCAAACAACATGAGCAA
GATTTACTGACAGTTTTACGAACAATTCGAGATTATTTGCCGCGCACAATGGTCAATGTT
GTATTGCCGCCAAATATCAAGTTGTTGTTGGAATTTACTGGAAAGAAATACGAGTGTGAG
ACTATGCATCATTTTGAATGTCCTTGCTTTTTTGGAATAAAACATCAGAAAAATAAAAAA
CTTTATTTAAGAATCGTTTTGGACTGGATTCAAAAAGTTATCGAAGTTGTAAATCGTGAT
GAATTTAATAGAAAAGATTTTACTGTCAATATTCAACCTTTTACTAAAAATGTTCAATTT
CCTGTGAATAAGAAAAATTTGACTGATTTTACTTACATGAGTCTTGATTGCTTTCATTTA
TCACAGAAAGGCTATGCTTTAGCTACAAATGGATTATGGAATAACATGCTACAAAAACAT
GGTCATAAAAGTGAAACATGGAACTGGAAAAATCCTTATAAATTTCTTTGTCCAACAAAT
GAATCGCCATATTTAGCTACTCGTGAAAATTAA
>g12672.t1 Gene=g12672 Length=410
MKYSITIFIIATCWLLPHTHAQITFLDDPIFRPLFRKVRNFFFHSNYQQTEEQMLSINKK
FNTLQKQFSPNEPFFCDTKNYLVRSSSIPDSVHKLRPGDIDIVGAIGDSLTAGNGALATN
VLQVSLEYKGVSFSIGGEKTWREFLTIPNILKEFNPNIYGYATGTGLSIHSSSKFNVAEL
GAMSRDMPHMTKTLIERMQSDENVKPQHWKLITFLVGANDFCFDMCYHKNPQEIVKQHEQ
DLLTVLRTIRDYLPRTMVNVVLPPNIKLLLEFTGKKYECETMHHFECPCFFGIKHQKNKK
LYLRIVLDWIQKVIEVVNRDEFNRKDFTVNIQPFTKNVQFPVNKKNLTDFTYMSLDCFHL
SQKGYALATNGLWNNMLQKHGHKSETWNWKNPYKFLCPTNESPYLATREN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g12672.t1 | CDD | cd01824 | Phospholipase_B_like | 91 | 378 | 2.12036E-124 |
| 7 | g12672.t1 | Coils | Coil | Coil | 47 | 67 | - |
| 6 | g12672.t1 | Gene3D | G3DSA:3.40.50.1110 | - | 84 | 373 | 9.1E-10 |
| 2 | g12672.t1 | PANTHER | PTHR21325 | PHOSPHOLIPASE B, PLB1 | 41 | 410 | 8.9E-114 |
| 3 | g12672.t1 | PANTHER | PTHR21325:SF31 | PHOSPHOLIPASE B1, MEMBRANE-ASSOCIATED | 41 | 410 | 8.9E-114 |
| 1 | g12672.t1 | Pfam | PF00657 | GDSL-like Lipase/Acylhydrolase | 104 | 369 | 1.7E-6 |
| 9 | g12672.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 21 | - |
| 10 | g12672.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 4 | - |
| 11 | g12672.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 5 | 16 | - |
| 12 | g12672.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 17 | 21 | - |
| 8 | g12672.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 22 | 410 | - |
| 4 | g12672.t1 | SUPERFAMILY | SSF52266 | SGNH hydrolase | 103 | 374 | 2.83E-12 |
| 5 | g12672.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 21 | - |
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:0004620 | phospholipase activity | MF |
| GO:0016788 | hydrolase activity, acting on ester bonds | MF |
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