General information for g1928.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Phosphatidate phosphatase LPIN2.
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.t1 | TTS | g1928.t1 | 13943620 | 13943620 |
| chr_3 | g1928 | g1928.t1 | isoform | g1928.t1 | 13944038 | 13948466 |
| chr_3 | g1928 | g1928.t1 | exon | g1928.t1.exon1 | 13944038 | 13944248 |
| chr_3 | g1928 | g1928.t1 | cds | g1928.t1.CDS1 | 13944038 | 13944248 |
| chr_3 | g1928 | g1928.t1 | exon | g1928.t1.exon2 | 13945425 | 13945528 |
| chr_3 | g1928 | g1928.t1 | cds | g1928.t1.CDS2 | 13945425 | 13945528 |
| chr_3 | g1928 | g1928.t1 | exon | g1928.t1.exon3 | 13945591 | 13945610 |
| chr_3 | g1928 | g1928.t1 | cds | g1928.t1.CDS3 | 13945591 | 13945610 |
| chr_3 | g1928 | g1928.t1 | exon | g1928.t1.exon4 | 13945692 | 13947976 |
| chr_3 | g1928 | g1928.t1 | cds | g1928.t1.CDS4 | 13945692 | 13947976 |
| chr_3 | g1928 | g1928.t1 | exon | g1928.t1.exon5 | 13948040 | 13948209 |
| chr_3 | g1928 | g1928.t1 | cds | g1928.t1.CDS5 | 13948040 | 13948209 |
| chr_3 | g1928 | g1928.t1 | exon | g1928.t1.exon6 | 13948284 | 13948466 |
| chr_3 | g1928 | g1928.t1 | cds | g1928.t1.CDS6 | 13948284 | 13948466 |
| chr_3 | g1928 | g1928.t1 | TSS | g1928.t1 | NA | NA |
Sequences
>g1928.t1 Gene=g1928 Length=2973
ATGTTAAGCATCGCAAATAAAGTATTTCGTGATTTTAAAGAGTTCTATAGCGAAATTAAT
GCAGCAACATTAACAGGAGCTATAGATGTAATTGTTGTTGAACAACCAAATGGAACATAT
TTATGCTCACCATTTCATGTTCGCTTTGGAAAGCTTGGTGTACTACGGAGTCGTGAAAAA
ATCGTCGATATTGAAATAAATGGAGAGCCAGTTGACATTCACATGAAATTGGGTGAATCT
GGAGAAGCATTTTTTGTAGAGGAATGCTCAGAAGGTGATTTAGATGAGCTTCCAAATTTA
GCGACATCACCAATTCCTACAAGTGAAATGACAAATTATGAAAGCTCGATTAATACATCA
AATACCGATATAAAAATCCCACTCCCACGTCGCAACTCAGTTGATGTATCAAAAGATATT
TCTGAAACTGAAAGAACTGGAACCAAATATGAGAACCAAGAGTCAGATTATTCACAACGT
CGTCACACTGATAATGATTTAGAGAAACGTGATTTAACACAAAACAAATTAGAATTTACT
ACACAAAAGTTGAGACAAGAGTTTCCAGATGAGCAAGATCAACTTTATGATGAAATAAAA
GAAAAATTTAACCTTCGTCAAATGGATGAAAGTCAACAATTTTGTCCGATTAATGAAGAT
CCAAAGGACGATAGTGATAACAAAAGTTCACCCGAAAATGATCTCGGCAAAATTGATGCA
TCAAAAGAAAAGTCTGATGATAACAAGAGTCTAGTCAAAGATGATAAAGATAAATCAGCT
ACATCACAACAATCGAAAAAGAAGCGTCGTAAGAAGTCGATGATTAAAAAGAAAAATTCT
CAGAGAAAGGGAAGTACAAGTAGCTCAGCTGGTAGCATTAATTCTGATCAAATTGATGTT
GAAGGAACTGATAACAATTCTGTTTGTACACTCTCTAATGACACATCTCCTAATACTGAA
AATGATATTACAAAAGAGTTGCCACGTGATGAAGAACCAGCACCAACTGGTAAACAAATT
GATCAAAATGATTCCTTTCCAATTAAAATTGAAGCACATCGTGAGCATTTATCAGACATT
CATTTCTTTAGTGATGGTGAATTGGGTTCAGCTTTGAGTCCACAACAATCACGACCAGCA
TCTCCTATTCAAAGTGATACTGAATTTGAGGTTTCCCAGCGTGAAAAGAGTGAAAATGTT
ATGACTAGTTCAGCTAGTTGGAAATGGGGGGAACCGATCGTAAAAACTGATGATGTATCA
AATGATATTAAAAATGTCGATTCAAGCAAAAGAAATTCAATGCTGACTGGAATGTTGAGT
TTTATGAAGCATAAAAGAAAGAATAATCAACAAGATGGACTCTATTTATCAGAATTAGAT
GCAGAAGGAATGGATCCAGAAATTGCTGCTCTCTATTTTCCACCGAATAGCAAACAACAT
GACGAAAATCAAAGAACACGTGACGACGATCGAGAAAGTGGAAATGGCACAAGTTTGCCT
CAAAGCCCATCGACTTCTATGGAAATGATTAAATCAGATTCTGATTATGAATTTAATAAA
CAAAATTTAGATACTTCATTGAACTTTGTTTCTATGTCTCTCTGCGGCGGAATGGAAAAA
GGCGGTCCAACTGATGAAGAATTTGAGAAAGGAATTGTACAATATAGTGATATTTGTCTC
AATCCAGCTCTCTTTGCATCGCCAAATCTCGTAGTTCGCATTAATAACAAATATTATAGC
TGGACTCAAGCTTGTCCTTATGTCATGACATTATTAGCTTATCAAAAACCATTGCCAGCA
GATGTATGCAACAAACTCTTACCACAGACTGATAAGGAAACTGTTAAAGAAGAAGAACAA
AATTCTGTGCAACCATCGAGTGTTGACTCAAATCGTCGTAGTTGGTTCTCATGGAGACGT
TCTGGCGGTGGTTCAGTTCAAGAACCAAAAAAATCGCCTATTAAACAAAACACTTCAGAT
ACTTTACCAATTTCAATTTCAAATGAGCAAGAAATAAAGACTGAAGATTTAATCAATTCA
ATTAAAGAAAATGATTATGCTCTTTCTGAAAGCGTCAATAGAGATACAAATAAAAGTGAA
ATGAGTCTGAATACCGAAAAATTCAGGAAAACACTTCGTCTTAGTTCTCAACAAATTGAA
TGTTTGAACTTAAAAAGTGGAATTAATGAAGTTGAATTTAGTGTCACTACGGCATATCAG
GGAACTTCTCGCTGTAAGTGCTACTTATTCAAATGGAAGCATAGCGATAAAGTTGTAATT
TCTGATATTGATGGCACCATCACAAAATCAGATGTTTTGGGGCATATCTTACCAATGGTT
GGAAAAGATTGGGCACAAATCGGTGTTGCTCAATTATTTTCGAAAATTGAAGAAAATGGA
TATAAGATGTTGTACTTGTCAGCTCGTGCTATTGGTCAATCTCGTGCTACAAGAGAATAT
TTAAGATCAATTCGTCAAGGTGATGTGAAACTTCCAGATGGGCCACTTTTACTCAATCCA
ACATCGCTTATTTCGGCATTTCATCGTGAGGTTATTGAACGCAAACCTGAACAATTTAAA
ATTGAATGTTTGAGTGATATCAAAAGTCTTTTTGGCGATAAGAATCCATTCTATGCAGGT
TATGGAAATCGTATTAATGATGTCTGGGCATATCGTGCTGTGGGAATTCCCATTATGAGA
ATTTATACTATTAATCCGCGTGGGGAATTGAAACACGAATTGACACAAACATTCCAATCA
ACATACTGTTCAATGACTTATATAGTTGATCAATTATTTCCACCAATCAAATTAACAGAT
GAAGATGATGATATCGAATATACATCGTTTAATTTTTGGAGAGAACCAGTGGCTGATATC
GAGGAAGTTAGCACTTCAGGAGAATCTACGCCAAGTAACACATCACTCCAAGCTATTCAA
TCCAGACCATTAGCAACAATTCTGGAAAATTAA
>g1928.t1 Gene=g1928 Length=990
MLSIANKVFRDFKEFYSEINAATLTGAIDVIVVEQPNGTYLCSPFHVRFGKLGVLRSREK
IVDIEINGEPVDIHMKLGESGEAFFVEECSEGDLDELPNLATSPIPTSEMTNYESSINTS
NTDIKIPLPRRNSVDVSKDISETERTGTKYENQESDYSQRRHTDNDLEKRDLTQNKLEFT
TQKLRQEFPDEQDQLYDEIKEKFNLRQMDESQQFCPINEDPKDDSDNKSSPENDLGKIDA
SKEKSDDNKSLVKDDKDKSATSQQSKKKRRKKSMIKKKNSQRKGSTSSSAGSINSDQIDV
EGTDNNSVCTLSNDTSPNTENDITKELPRDEEPAPTGKQIDQNDSFPIKIEAHREHLSDI
HFFSDGELGSALSPQQSRPASPIQSDTEFEVSQREKSENVMTSSASWKWGEPIVKTDDVS
NDIKNVDSSKRNSMLTGMLSFMKHKRKNNQQDGLYLSELDAEGMDPEIAALYFPPNSKQH
DENQRTRDDDRESGNGTSLPQSPSTSMEMIKSDSDYEFNKQNLDTSLNFVSMSLCGGMEK
GGPTDEEFEKGIVQYSDICLNPALFASPNLVVRINNKYYSWTQACPYVMTLLAYQKPLPA
DVCNKLLPQTDKETVKEEEQNSVQPSSVDSNRRSWFSWRRSGGGSVQEPKKSPIKQNTSD
TLPISISNEQEIKTEDLINSIKENDYALSESVNRDTNKSEMSLNTEKFRKTLRLSSQQIE
CLNLKSGINEVEFSVTTAYQGTSRCKCYLFKWKHSDKVVISDIDGTITKSDVLGHILPMV
GKDWAQIGVAQLFSKIEENGYKMLYLSARAIGQSRATREYLRSIRQGDVKLPDGPLLLNP
TSLISAFHREVIERKPEQFKIECLSDIKSLFGDKNPFYAGYGNRINDVWAYRAVGIPIMR
IYTINPRGELKHELTQTFQSTYCSMTYIVDQLFPPIKLTDEDDDIEYTSFNFWREPVADI
EEVSTSGESTPSNTSLQAIQSRPLATILEN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 16 | g1928.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 121 | 193 | - |
| 8 | g1928.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 135 | 176 | - |
| 9 | g1928.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 218 | 349 | - |
| 12 | g1928.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 218 | 262 | - |
| 7 | g1928.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 263 | 279 | - |
| 10 | g1928.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 280 | 322 | - |
| 15 | g1928.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 323 | 337 | - |
| 13 | g1928.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 371 | 404 | - |
| 18 | g1928.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 371 | 388 | - |
| 17 | g1928.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 472 | 508 | - |
| 20 | g1928.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 480 | 494 | - |
| 11 | g1928.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 613 | 666 | - |
| 19 | g1928.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 620 | 641 | - |
| 14 | g1928.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 650 | 666 | - |
| 4 | g1928.t1 | PANTHER | PTHR12181 | LIPIN | 4 | 961 | 1.8E-209 |
| 1 | g1928.t1 | Pfam | PF04571 | lipin, N-terminal conserved region | 4 | 104 | 1.3E-41 |
| 3 | g1928.t1 | Pfam | PF16876 | Lipin/Ned1/Smp2 multi-domain protein middle domain | 530 | 638 | 2.2E-29 |
| 2 | g1928.t1 | Pfam | PF08235 | LNS2 (Lipin/Ned1/Smp2) | 710 | 934 | 2.0E-101 |
| 6 | g1928.t1 | SMART | SM00775 | lns2 | 758 | 913 | 4.6E-109 |
| 5 | g1928.t1 | SUPERFAMILY | SSF56784 | HAD-like | 752 | 904 | 3.42E-23 |
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 transcript has been annotated with K15728 (phosphatidate phosphatase LPIN)
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.
