General information for g6358.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Lipase 3.
Parent gene
- The parent gene g6358 is located on chr_2: 16470511..16472570 (+ 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_2 | g6358 | g6358.t1 | isoform | g6358.t1 | 16470511 | 16472570 |
| chr_2 | g6358 | g6358.t1 | exon | g6358.t1.exon1 | 16470511 | 16470531 |
| chr_2 | g6358 | g6358.t1 | cds | g6358.t1.CDS1 | 16470511 | 16470531 |
| chr_2 | g6358 | g6358.t1 | exon | g6358.t1.exon2 | 16470658 | 16470877 |
| chr_2 | g6358 | g6358.t1 | cds | g6358.t1.CDS2 | 16470658 | 16470877 |
| chr_2 | g6358 | g6358.t1 | exon | g6358.t1.exon3 | 16471072 | 16471179 |
| chr_2 | g6358 | g6358.t1 | cds | g6358.t1.CDS3 | 16471072 | 16471179 |
| chr_2 | g6358 | g6358.t1 | exon | g6358.t1.exon4 | 16471254 | 16471412 |
| chr_2 | g6358 | g6358.t1 | cds | g6358.t1.CDS4 | 16471254 | 16471412 |
| chr_2 | g6358 | g6358.t1 | exon | g6358.t1.exon5 | 16471845 | 16472114 |
| chr_2 | g6358 | g6358.t1 | cds | g6358.t1.CDS5 | 16471845 | 16472114 |
| chr_2 | g6358 | g6358.t1 | exon | g6358.t1.exon6 | 16472185 | 16472213 |
| chr_2 | g6358 | g6358.t1 | cds | g6358.t1.CDS6 | 16472185 | 16472213 |
| chr_2 | g6358 | g6358.t1 | exon | g6358.t1.exon7 | 16472268 | 16472570 |
| chr_2 | g6358 | g6358.t1 | cds | g6358.t1.CDS7 | 16472268 | 16472570 |
| chr_2 | g6358 | g6358.t1 | TSS | g6358.t1 | NA | NA |
| chr_2 | g6358 | g6358.t1 | TTS | g6358.t1 | NA | NA |
Sequences
>g6358.t1 Gene=g6358 Length=1110
ATGAAAATTATTTTACTCTTGGTGTTAAAAATTCATCAAGAAGGTTATCCAGTTCAAAAT
TATTCAGTCATCACATCAGATGGTTATGTTTTACAACTTGTAAGAATAACAAGAAGCAAA
AAGTCACAACAAATCAAGGAAAAAACTGTTGTGTTTCTTATGCATGGTCTTTTGTGTTCA
TCTATGGATTGGCTTGTCCTTGGAAAAGAAAAAGCTTTGCCATTTTTACTTGCTGATGCT
GGTTTTGACGTTTTCCTAGGAAATGCAAGAGGAAATTCACATTCACGTAAAAACATTCAT
TTATCACCAAATAGTAAAAAATTCTGGAATTTCTCATGGCATGAAATCGGAACAATTGAT
ATACCAGCAATGATTGATTTTGCATTGTCATTGACTCAACAAAGCAGTTTACATTACATT
GGGCACTCTCAGGGAACAACGAGCTTTTTTGTTAGTGCATCAATTCGAGAGGAGCTCAAT
ATGAAAGTAAGAACAATGCATGCACTTGCTCCAGTAGCCTTCATGAATCATCTTAAAAGT
CCACTCTTGAGAATAATGGCACCAATGGTCAACAAAATTCACCGGATATTTGATTCTCTG
GGTGTTTATGAGTTCCTTCCAACTCATGATATGATGGTGCAATTTGGAATGCATGCATGC
CAGCGTGAATCATCATTTCGAGAGGTCTGTGCCAATGCATTATTCCTCCTTTGCGGATAC
GATTCGATTCAATTCAACCGAACACTTTTCTCACAAATCGCTCAATATACGCCAGCGGGC
GCATCTGTCGATCAATTGGTTCATTATGCTCAAGAAATCAATTCTGGTAAATTTCAAATG
TTTGATTATGGAATATTGAAAAATTTTGTAAAATACCATGGGAAATCACCTCCTAGTTAT
CAACTTGACAAAATTTCTGTTCAAATCTTTTTATATTATGGCGATAATGATTGGATGGCT
TCAGTGATCGATGTACAAAGACTTGCTAAAAAGTTGAAGAAAAATCATCAAATTTTTCTA
AAAAAGTTCAATCACTTGGATTTTATCTATGGAAATGACGCCGACAAGTTAGTTTATAAA
AAGGTTATTGAGATAATTAAAGAAAATTGA
>g6358.t1 Gene=g6358 Length=369
MKIILLLVLKIHQEGYPVQNYSVITSDGYVLQLVRITRSKKSQQIKEKTVVFLMHGLLCS
SMDWLVLGKEKALPFLLADAGFDVFLGNARGNSHSRKNIHLSPNSKKFWNFSWHEIGTID
IPAMIDFALSLTQQSSLHYIGHSQGTTSFFVSASIREELNMKVRTMHALAPVAFMNHLKS
PLLRIMAPMVNKIHRIFDSLGVYEFLPTHDMMVQFGMHACQRESSFREVCANALFLLCGY
DSIQFNRTLFSQIAQYTPAGASVDQLVHYAQEINSGKFQMFDYGILKNFVKYHGKSPPSY
QLDKISVQIFLYYGDNDWMASVIDVQRLAKKLKKNHQIFLKKFNHLDFIYGNDADKLVYK
KVIEIIKEN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g6358.t1 | Gene3D | G3DSA:3.40.50.1820 | - | 9 | 368 | 1.8E-129 |
| 2 | g6358.t1 | PANTHER | PTHR11005:SF127 | LIPASE-RELATED | 10 | 368 | 5.2E-135 |
| 3 | g6358.t1 | PANTHER | PTHR11005 | LYSOSOMAL ACID LIPASE-RELATED | 10 | 368 | 5.2E-135 |
| 12 | g6358.t1 | PIRSF | PIRSF000862 | Steryl_ester_lip | 5 | 369 | 2.7E-124 |
| 1 | g6358.t1 | Pfam | PF04083 | Partial alpha/beta-hydrolase lipase region | 11 | 66 | 4.5E-19 |
| 8 | g6358.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 13 | - |
| 9 | g6358.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 2 | - |
| 10 | g6358.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 3 | 9 | - |
| 11 | g6358.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 10 | 13 | - |
| 7 | g6358.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 14 | 369 | - |
| 4 | g6358.t1 | SUPERFAMILY | SSF53474 | alpha/beta-Hydrolases | 8 | 367 | 7.07E-57 |
| 5 | g6358.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 15 | - |
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:0016788 | hydrolase activity, acting on ester bonds | MF |
| GO:0006629 | lipid metabolic process | BP |
KEGG
Orthology
- This transcript has been annotated with K01052 (lysosomal acid lipase/cholesteryl ester hydrolase)
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. There were no conditions that were differentially expressed