General information for g1627.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Glycerol-3-phosphate acyltransferase 1, mitochondrial.
Parent gene
- The parent gene g1627 is located on chr_3: 12221043..12223541 (+ 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 | g1627 | g1627.t4 | TSS | g1627.t4 | 12220342 | 12220342 |
| chr_3 | g1627 | g1627.t4 | isoform | g1627.t4 | 12221043 | 12223017 |
| chr_3 | g1627 | g1627.t4 | exon | g1627.t4.exon1 | 12221043 | 12221044 |
| chr_3 | g1627 | g1627.t4 | exon | g1627.t4.exon2 | 12221103 | 12221177 |
| chr_3 | g1627 | g1627.t4 | cds | g1627.t4.CDS1 | 12221124 | 12221177 |
| chr_3 | g1627 | g1627.t4 | exon | g1627.t4.exon3 | 12221466 | 12223017 |
| chr_3 | g1627 | g1627.t4 | cds | g1627.t4.CDS2 | 12221466 | 12223016 |
| chr_3 | g1627 | g1627.t4 | TTS | g1627.t4 | NA | NA |
Sequences
>g1627.t4 Gene=g1627 Length=1629
AATCAAACAATGATGATGATTCAATGTTACAAATCGATGGCTTGATTTGTGCTGATTGTT
CAAAAAATTTGAATAGAGAACCACAAATATCAGCTCACGATCGTGCAAAAGCAGCTGTTG
ACATTCTTAAAGAAACAACACACGTTAATCGTAAAGGCTATGATTGGGCTTCATTCTTTC
CTCATCTTGCTCAAAATATTCGTGTGAAAAAGTACGAATATAAGCCAGTTTTTGAGAAAG
TTCTTAAACATAAACGTTTACAAAGAGAAATTGAAAGAGTCGCAAAAGATGCAGTTCGTG
AAAGTGATGTTTCTTTTGAAATGGAAGACATTTATTACGAGCAAATGTTGGAAAAATGCA
AGAAAAAAGCTTACAAAATGCTTGTTACAATGCGTTGTACATTGTCAGATAAACTTTTGC
GACTCACTTCTTATGTTCTTTACAAATTACTGCCAATTTTCCTTTCTGGTGTGGTCGCTC
ATCCAGCACATATTGAAATGTTAAAAGTTGCACAAAAGAAAATGCCAAATACACCACTTA
TTTTTATGCCAGTTCATCGAAGTCATTTAGATTACATTATGGTCACATTCATTTTGCTCA
ATCATGATATAAAATGTCCACAAGTCTGTTCTGGTGACAATTTAAATATTCCAGTTTTTG
GCTTTCTTTTACGTGGTCTTGGTGCATTTTATATCAAAAGAAAAATTGATGCAGCTGATG
GCAAAAAAGATTACATTTATCGTGGATTGCTTCAAACTTATATGGAAGAAAGCATTGCAG
CTGGTCATAATTTAGAATTTTTCATTGAAGGAGGAAGAACAAGAACAGGAAAGCCAGCAA
TGCCAAAAGGTGGAATTTTATCGGTAATCATTGATGCATTTGTCAATAATTTAATTGATG
ATGCAATTCTTGTGCCTGTTTCAATAAATTATGAGAAACTTGTTGATGGAAGTTTTGTAA
GAGAACAAATGGGAACACCAAAAAAGAAGGAATCATTTAGAAAAGCAATTGCAAGTATTT
GGAAAGTTTTAAATGCAAAATATGGACAAATGAGAATTGATTTTAATGAGCCATTTTCAC
TTAAAGAACTTGTACATTCATTTAAGGAAAGAAGAACAAGTGTTCCAAGACCATTAACTT
CAAGTCGTAAACTTATGTCAAGACAATCAATTAATTCAGCATATGGCATTGAAGTTGATG
ACAAACATCGAGTACTTGTTGACAATATTGCACGTCATGTTATTTACGATTGTTGTGCTG
CTATGTCAATAATGTCAACAAATGCAGTTTCCTTTTTATTACTTAATAAACATCGACATG
GTGCAACAATTAAAGAACTCTCAAAATCATTAGATGAATTAAGAGATAAATTTGAAGGCA
AAAGAGATTTTGGTTTTGATGGACCATCAGAAAATGTAATTATGACTGCCATAGAACTTC
TTGGTGAAGACATGATAAAAACAAAAGTCACAGAAAATGGAGAAAAATTTATTGCACCGA
TTTTGTCAGTTCCAAATGTTATAGAAACTTTTTATTATTCCAATACATTTGTGCCACACA
TTGCACTTGAGGCTGCTATAATTGTTGGTTCTGTAGCTGCATTAAAGGAAAATAACTTGA
CATCATTGA
>g1627.t4 Gene=g1627 Length=535
MLQIDGLICADCSKNLNREPQISAHDRAKAAVDILKETTHVNRKGYDWASFFPHLAQNIR
VKKYEYKPVFEKVLKHKRLQREIERVAKDAVRESDVSFEMEDIYYEQMLEKCKKKAYKML
VTMRCTLSDKLLRLTSYVLYKLLPIFLSGVVAHPAHIEMLKVAQKKMPNTPLIFMPVHRS
HLDYIMVTFILLNHDIKCPQVCSGDNLNIPVFGFLLRGLGAFYIKRKIDAADGKKDYIYR
GLLQTYMEESIAAGHNLEFFIEGGRTRTGKPAMPKGGILSVIIDAFVNNLIDDAILVPVS
INYEKLVDGSFVREQMGTPKKKESFRKAIASIWKVLNAKYGQMRIDFNEPFSLKELVHSF
KERRTSVPRPLTSSRKLMSRQSINSAYGIEVDDKHRVLVDNIARHVIYDCCAAMSIMSTN
AVSFLLLNKHRHGATIKELSKSLDELRDKFEGKRDFGFDGPSENVIMTAIELLGEDMIKT
KVTENGEKFIAPILSVPNVIETFYYSNTFVPHIALEAAIIVGSVAALKENNLTSL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g1627.t4 | CDD | cd07993 | LPLAT_DHAPAT-like | 147 | 358 | 1.6242E-85 |
| 6 | g1627.t4 | Coils | Coil | Coil | 429 | 449 | - |
| 2 | g1627.t4 | PANTHER | PTHR12563:SF21 | BCDNA.GH07066 | 20 | 530 | 1.0E-143 |
| 3 | g1627.t4 | PANTHER | PTHR12563 | GLYCEROL-3-PHOSPHATE ACYLTRANSFERASE | 20 | 530 | 1.0E-143 |
| 1 | g1627.t4 | Pfam | PF01553 | Acyltransferase | 165 | 301 | 1.7E-16 |
| 8 | g1627.t4 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 405 | - |
| 9 | g1627.t4 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 406 | 427 | - |
| 7 | g1627.t4 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 428 | 535 | - |
| 5 | g1627.t4 | SMART | SM00563 | plsc_2 | 172 | 304 | 1.9E-24 |
| 4 | g1627.t4 | SUPERFAMILY | SSF69593 | Glycerol-3-phosphate (1)-acyltransferase | 146 | 356 | 1.7E-17 |
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:0044255 | cellular lipid metabolic process | BP |
| GO:0016746 | acyltransferase activity | MF |
| GO:0008374 | O-acyltransferase activity | 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.
