Gene loci information

Transcript annotation

  • This transcript has been annotated as Lipase 1.

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_2 g4537 g4537.t1 TTS g4537.t1 3168988 3168988
chr_2 g4537 g4537.t1 isoform g4537.t1 3169323 3170703
chr_2 g4537 g4537.t1 exon g4537.t1.exon1 3169323 3169511
chr_2 g4537 g4537.t1 cds g4537.t1.CDS1 3169323 3169511
chr_2 g4537 g4537.t1 exon g4537.t1.exon2 3169594 3169818
chr_2 g4537 g4537.t1 cds g4537.t1.CDS2 3169594 3169818
chr_2 g4537 g4537.t1 exon g4537.t1.exon3 3169876 3170703
chr_2 g4537 g4537.t1 cds g4537.t1.CDS3 3169876 3170703
chr_2 g4537 g4537.t1 TSS g4537.t1 3170740 3170740

Sequences

>g4537.t1 Gene=g4537 Length=1242
ATGTTTGGTGGTAGAATTTTTAAAATTTTAACAATTTTCACAGTGTTTTTAGATTATAAC
ACAAGTGCTCATTTATATGGTCACAATCGCGTGGAAATAGATGACGATGCATTACAGTTA
ATATCTAGAGCTGGATATAAAGGGGAAGCATATTATGTCGAGCCGGAAGATAAAAGCGGA
TGGATATTGAAGATGCATAGAATTTTACCGAGAGGAAATGTGAGAGACGCTCAACCGGTT
TTTCTCATGCATGGTCTGTTTGCGGCAGCAGCTGATTATTTGATAACAAGAAAAAAACGT
GCGTTAGCTTTTCTACTTGCTGACAATAATTATGATGTATTTTTGGGAAACTCTAGAGGA
AGCCGGCACTCAAGAATGGCTAAAAATACTAATAGTTCTCTTTGGGAATTTTCATTTCAT
GAAATAGGAAATTATGACTTAGCAGCGATGATAGATCGAGCATTAGAAATTAATGGAAGA
AAGAGACTTTTTTATGTTGGACATTCTCAAGGAACAACCTCTTTTTTCGCACTGTTATCA
ACTCGACCAGAATATAATGCAAAAATAATTCAAGCTCATCTACTTGCACCAGTCGCATTT
ATGAAATATTTTCCAAATTTATGGTTACGTGATATTATAATGCCACTAATGAATTTATTC
GAAAGAAATAGAGTTAAATATGTAAATTTTTCAGATATTCTTTCTATTGGTGGTCCAATA
GCTCGAGTACTTTGCAATAGTACAATGAATAACTTCACTGTTCAATTTTGCAAAGCAATC
ATTTATACGATCGTTGGTACAAACACTTATCAAGAGGAAATAGATGAGGCAATTTTGCCA
ACTTTAATTGATCATATATCAACGAAAGTTAGTGCACATCAATTAATTCATTATGCACAA
ATGATTTTAAGTGGGAGGTTTCGTCTATATGATTTTAAATGGAATAATGAACAAGTTTAT
GGCACATCTTATCCACCAGATTATCAAATATCAAACATAATTGCTCCACTTTATCTCTAT
CGAGCACCAGAAGATTTACTGTCATCACGTCGTGATGTTGAACATTTAATGAAACTATTG
AAAAACGTAAAGTATTATCGCGTGATTCCAAATTACAACCACGTCGATTTTACATATGGT
AGAAGATCACGAAAAGTACTTTATAATGAAATTCTTAATTTTATCAATATGGAAAATTCA
TCGAATATTTCATCAAATAGCATTTATAGAAGATCACCATAA

>g4537.t1 Gene=g4537 Length=413
MFGGRIFKILTIFTVFLDYNTSAHLYGHNRVEIDDDALQLISRAGYKGEAYYVEPEDKSG
WILKMHRILPRGNVRDAQPVFLMHGLFAAAADYLITRKKRALAFLLADNNYDVFLGNSRG
SRHSRMAKNTNSSLWEFSFHEIGNYDLAAMIDRALEINGRKRLFYVGHSQGTTSFFALLS
TRPEYNAKIIQAHLLAPVAFMKYFPNLWLRDIIMPLMNLFERNRVKYVNFSDILSIGGPI
ARVLCNSTMNNFTVQFCKAIIYTIVGTNTYQEEIDEAILPTLIDHISTKVSAHQLIHYAQ
MILSGRFRLYDFKWNNEQVYGTSYPPDYQISNIIAPLYLYRAPEDLLSSRRDVEHLMKLL
KNVKYYRVIPNYNHVDFTYGRRSRKVLYNEILNFINMENSSNISSNSIYRRSP

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g4537.t1 Gene3D G3DSA:3.40.50.1820 - 26 398 2.5E-100
2 g4537.t1 PANTHER PTHR11005:SF127 LIPASE-RELATED 13 398 1.4E-96
3 g4537.t1 PANTHER PTHR11005 LYSOSOMAL ACID LIPASE-RELATED 13 398 1.4E-96
7 g4537.t1 PIRSF PIRSF000862 Steryl_ester_lip 4 400 8.1E-96
1 g4537.t1 Pfam PF00561 alpha/beta hydrolase fold 79 188 5.2E-14
4 g4537.t1 SUPERFAMILY SSF53474 alpha/beta-Hydrolases 30 396 1.15E-42
5 g4537.t1 SignalP_EUK SignalP-noTM SignalP-noTM 1 22 -

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

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