General information for g1928.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Phosphatidate phosphatase LPIN3.
Parent gene
- The parent gene g1928 is located on chr_3: 13948055..13950577 (- 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_3 | g1928 | g1928.t6 | isoform | g1928.t6 | 13947486 | 13950577 |
| chr_3 | g1928 | g1928.t6 | exon | g1928.t6.exon1 | 13947486 | 13947976 |
| chr_3 | g1928 | g1928.t6 | cds | g1928.t6.CDS1 | 13947487 | 13947976 |
| chr_3 | g1928 | g1928.t6 | exon | g1928.t6.exon2 | 13948040 | 13948209 |
| chr_3 | g1928 | g1928.t6 | cds | g1928.t6.CDS2 | 13948040 | 13948209 |
| chr_3 | g1928 | g1928.t6 | exon | g1928.t6.exon3 | 13948284 | 13948572 |
| chr_3 | g1928 | g1928.t6 | cds | g1928.t6.CDS3 | 13948284 | 13948466 |
| chr_3 | g1928 | g1928.t6 | exon | g1928.t6.exon4 | 13950373 | 13950577 |
| chr_3 | g1928 | g1928.t6 | TSS | g1928.t6 | 13950643 | 13950643 |
| chr_3 | g1928 | g1928.t6 | TTS | g1928.t6 | NA | NA |
Sequences
>g1928.t6 Gene=g1928 Length=1155
CAAAAGAAAAGAAACAATTTTAAAAGAGAGGAGAAAAAAAATAATACTGCACAAAAATAC
AAATAACTTTGGGTACATTGAGTAACTAAACAGAACTACTCGCGGTTACGAAACCGTCAA
TAATCTAAAGCAAATTAATACAACATTAAAAAAGACCTATTTTGAGTTTTGGCATAAGTG
AAAGTAAATCGAATACGTTGAAAAGGAAGTGAAGAAATTAGTCTAACTAAAATATAGCTT
ATATTGATAATAATATATTCCACGTGTGTGATAATTGTTAGCTGAGAGCAAGATAATTTT
AAAGAATCAATATGTTAAGCATCGCAAATAAAGTATTTCGTGATTTTAAAGAGTTCTATA
GCGAAATTAATGCAGCAACATTAACAGGAGCTATAGATGTAATTGTTGTTGAACAACCAA
ATGGAACATATTTATGCTCACCATTTCATGTTCGCTTTGGAAAGCTTGGTGTACTACGGA
GTCGTGAAAAAATCGTCGATATTGAAATAAATGGAGAGCCAGTTGACATTCACATGAAAT
TGGGTGAATCTGGAGAAGCATTTTTTGTAGAGGAATGCTCAGAAGGTGATTTAGATGAGC
TTCCAAATTTAGCGACATCACCAATTCCTACAAGTGAAATGACAAATTATGAAAGCTCGA
TTAATACATCAAATACCGATATAAAAATCCCACTCCCACGTCGCAACTCAGTTGATGTAT
CAAAAGATATTTCTGAAACTGAAAGAACTGGAACCAAATATGAGAACCAAGAGTCAGATT
ATTCACAACGTCGTCACACTGATAATGATTTAGAGAAACGTGATTTAACACAAAACAAAT
TAGAATTTACTACACAAAAGTTGAGACAAGAGTTTCCAGATGAGCAAGATCAACTTTATG
ATGAAATAAAAGAAAAATTTAACCTTCGTCAAATGGATGAAAGTCAACAATTTTGTCCGA
TTAATGAAGATCCAAAGGACGATAGTGATAACAAAAGTTCACCCGAAAATGATCTCGGCA
AAATTGATGCATCAAAAGAAAAGTCTGATGATAACAAGAGTCTAGTCAAAGATGATAAAG
ATAAATCAGCTACATCACAACAATCGAAAAAGAAGCGTCGTAAGAAGTCGATGATTAAAA
AGAAAAATTCTCAGA
>g1928.t6 Gene=g1928 Length=281
MLSIANKVFRDFKEFYSEINAATLTGAIDVIVVEQPNGTYLCSPFHVRFGKLGVLRSREK
IVDIEINGEPVDIHMKLGESGEAFFVEECSEGDLDELPNLATSPIPTSEMTNYESSINTS
NTDIKIPLPRRNSVDVSKDISETERTGTKYENQESDYSQRRHTDNDLEKRDLTQNKLEFT
TQKLRQEFPDEQDQLYDEIKEKFNLRQMDESQQFCPINEDPKDDSDNKSSPENDLGKIDA
SKEKSDDNKSLVKDDKDKSATSQQSKKKRRKKSMIKKKNSQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g1928.t6 | MobiDBLite | mobidb-lite | consensus disorder prediction | 121 | 174 | - |
| 7 | g1928.t6 | MobiDBLite | mobidb-lite | consensus disorder prediction | 135 | 174 | - |
| 4 | g1928.t6 | MobiDBLite | mobidb-lite | consensus disorder prediction | 217 | 281 | - |
| 5 | g1928.t6 | MobiDBLite | mobidb-lite | consensus disorder prediction | 217 | 262 | - |
| 6 | g1928.t6 | MobiDBLite | mobidb-lite | consensus disorder prediction | 263 | 281 | - |
| 2 | g1928.t6 | PANTHER | PTHR12181 | LIPIN | 4 | 207 | 1.8E-51 |
| 3 | g1928.t6 | PANTHER | PTHR12181:SF11 | PHOSPHATIDATE PHOSPHATASE LPIN2 | 4 | 207 | 1.8E-51 |
| 1 | g1928.t6 | Pfam | PF04571 | lipin, N-terminal conserved region | 4 | 104 | 1.6E-42 |
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.
