General information for g12349.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Lipase 3.
Parent gene
- The parent gene g12349 is located on chr_1: 22723566..22724299 (+ 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 | g12349 | g12349.t3 | TSS | g12349.t3 | 22722897 | 22722897 |
| chr_1 | g12349 | g12349.t3 | isoform | g12349.t3 | 22723566 | 22724299 |
| chr_1 | g12349 | g12349.t3 | exon | g12349.t3.exon1 | 22723566 | 22723913 |
| chr_1 | g12349 | g12349.t3 | cds | g12349.t3.CDS1 | 22723570 | 22723913 |
| chr_1 | g12349 | g12349.t3 | exon | g12349.t3.exon2 | 22723969 | 22724299 |
| chr_1 | g12349 | g12349.t3 | cds | g12349.t3.CDS2 | 22723969 | 22724299 |
| chr_1 | g12349 | g12349.t3 | TTS | g12349.t3 | 22724340 | 22724340 |
Sequences
>g12349.t3 Gene=g12349 Length=679
TGTAATGATTAGTGAAAAACCAGCTTATGCTTCTAAACTAAGAAGTGTCAATTTGTTAGC
TCCTGCAACTTATATGACATATATTGTAACACCTTATGTTCGTTGGATTGCTGCTTATGC
TTATACATGGGATTTAATGTTCAATATGATGGGAACATACTATTTTGCACCAACTGATGA
GATGGACAAACAAGCTGCTTATAATGATTGTCGTGATGGTGCACCTTATCAAGAAATGTG
CGCAATACAAATTTTCCTTATCGCTGGATGGAATTCTCAAGAAACAAATCGAACAATGTT
GCCAGTTATGAATGCACATTCACCTGCTGGAGCAAGCATGATGAATATGTTGCATTATGC
TCAAATAGTAAGAAGTGGAATTTTCCAACAATATGATCATGGTGTCAATAATATCTACAG
ATATGGTCAATTAACACCTCCATTATATAGATTCACTGGTCATACTGCACCATTACATTT
ATTTTGGTCAACAAATGATTGGATGGCAACACCAGCTGATGTATCGACACTTTATAATCG
ATTAGGTGGTTCAAGTGTTGTAGATTTATTTTATCATGTACCACAAGTTGAATGGAATCA
TATGGACTTTGTTTGGGGTATTAATGTTAGACGTTTGGTTTATAACAGAATGGTTGAAGA
AATGAGAAAATATGACTGA
>g12349.t3 Gene=g12349 Length=224
MISEKPAYASKLRSVNLLAPATYMTYIVTPYVRWIAAYAYTWDLMFNMMGTYYFAPTDEM
DKQAAYNDCRDGAPYQEMCAIQIFLIAGWNSQETNRTMLPVMNAHSPAGASMMNMLHYAQ
IVRSGIFQQYDHGVNNIYRYGQLTPPLYRFTGHTAPLHLFWSTNDWMATPADVSTLYNRL
GGSSVVDLFYHVPQVEWNHMDFVWGINVRRLVYNRMVEEMRKYD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g12349.t3 | Gene3D | G3DSA:3.40.50.1820 | - | 1 | 222 | 7.6E-57 |
| 1 | g12349.t3 | PANTHER | PTHR11005:SF127 | LIPASE-RELATED | 1 | 223 | 9.6E-58 |
| 2 | g12349.t3 | PANTHER | PTHR11005 | LYSOSOMAL ACID LIPASE-RELATED | 1 | 223 | 9.6E-58 |
| 4 | g12349.t3 | SUPERFAMILY | SSF53474 | alpha/beta-Hydrolases | 6 | 222 | 2.89E-21 |
| 3 | g12349.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 15 | 37 | - |
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. There were no conditions that were differentially expressed