General information for g15508.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative 1-acyl-sn-glycerol-3-phosphate acyltransferase gamma.
Parent gene
- The parent gene g15508 is located on chr_4: 5699112..5700353 (+ 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_4 | g15508 | g15508.t1 | isoform | g15508.t1 | 5699112 | 5700353 |
| chr_4 | g15508 | g15508.t1 | exon | g15508.t1.exon1 | 5699112 | 5699289 |
| chr_4 | g15508 | g15508.t1 | cds | g15508.t1.CDS1 | 5699112 | 5699289 |
| chr_4 | g15508 | g15508.t1 | exon | g15508.t1.exon2 | 5699342 | 5700226 |
| chr_4 | g15508 | g15508.t1 | cds | g15508.t1.CDS2 | 5699342 | 5700226 |
| chr_4 | g15508 | g15508.t1 | exon | g15508.t1.exon3 | 5700295 | 5700353 |
| chr_4 | g15508 | g15508.t1 | cds | g15508.t1.CDS3 | 5700295 | 5700353 |
| chr_4 | g15508 | g15508.t1 | TSS | g15508.t1 | NA | NA |
| chr_4 | g15508 | g15508.t1 | TTS | g15508.t1 | NA | NA |
Sequences
>g15508.t1 Gene=g15508 Length=1122
ATGTTCAATAAAATTTCAAATTTAAGAATTTTAGGACAATTTTTATTAGTTTCTATCTTT
TTAACATCAGGACTTTTTTTGAATTTTATTCAAATTCTTTTACATGTTTTCGTTAAACCT
TTAAATAGACATTTTTTCAATAACTGGATGAATTTTATTTCTTGGACATTTTGGGCTCAA
ATTACTTTCATCTATGATTTTTGGTCAAAATCTGAGCTTATAATTTACTGCAAAGATGAA
GATTTTGAGTTTTTTGGAAATGAACACAATTTGGCACTTTTAAATCACAAATATGAAATC
GATTGGCTGATAGCTTTTGTGCTTTCTGAAAAATTTAAAGTTCTTGGATCAATTCGTGCT
TTTGCAAAGAATGCAATTAAATACATTCCTATTTGTGGATGGTTTTGTGCTTTAAATGAA
CAAATTTTTCTTCATCGATCTTTTGATAAAGATAAAAAAACAATTGAAGACAAACTTCAT
CAATTTATTCAAGATTCAAATTTTAATTGGATAATTTTATTTGCTGAAGGTACAAGATTT
ACAAAAGAAAAACATAAAATATCTTTACAATTTGGAAAAGAGAAAAAATTGGAGCCATTA
AAATATCATCTCATACCGCGTTCTCGTGGTTTCAATTTGTGTGTTAGTTTTATGAAAAAA
TTAAATTGCAAAGCAATTTATAATCTGCAATTGGCATTCGATAAGAATTCAAAATATCAA
CCAAATTTAAGTAATTTATTACTTGGAAAAAAAGTTATCGCCCATCTCTATATTGAAAGA
ATTCCATTGGAAAATGTTGAACCAACTTTTGAATATTTGTATGAAATTTACAAAACCAAA
GACGAATTGCATGAAAGTTTTGAGAAGTTTGGAAATTTTTTTGAAGGCCGAAAATTGAAA
TCAATTGAAGGAAGAAAAATTAAACCAAATTGGAATGTCTTTATAAACACAATCGTTTGG
GGTATTCTAATAATATCTTTAGCACTTTTCTACGTAATCAAATTAATTTTAGCTCAACAA
TATTTGTTGATTGCAATCATAAGTATAATAAATTTAATTTTAGTGCTTGCTATACAGCAA
AATATTGTACAAGCTTCAAAAATAAATGAAATTTCAAACTAG
>g15508.t1 Gene=g15508 Length=373
MFNKISNLRILGQFLLVSIFLTSGLFLNFIQILLHVFVKPLNRHFFNNWMNFISWTFWAQ
ITFIYDFWSKSELIIYCKDEDFEFFGNEHNLALLNHKYEIDWLIAFVLSEKFKVLGSIRA
FAKNAIKYIPICGWFCALNEQIFLHRSFDKDKKTIEDKLHQFIQDSNFNWIILFAEGTRF
TKEKHKISLQFGKEKKLEPLKYHLIPRSRGFNLCVSFMKKLNCKAIYNLQLAFDKNSKYQ
PNLSNLLLGKKVIAHLYIERIPLENVEPTFEYLYEIYKTKDELHESFEKFGNFFEGRKLK
SIEGRKIKPNWNVFINTIVWGILIISLALFYVIKLILAQQYLLIAIISIINLILVLAIQQ
NIVQASKINEISN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 20 | g15508.t1 | CDD | cd07990 | LPLAT_LCLAT1-like | 62 | 259 | 7.4239E-55 |
| 3 | g15508.t1 | PANTHER | PTHR10983:SF24 | MIP21173P-RELATED | 13 | 332 | 6.9E-67 |
| 4 | g15508.t1 | PANTHER | PTHR10983 | 1-ACYLGLYCEROL-3-PHOSPHATE ACYLTRANSFERASE-RELATED | 13 | 332 | 6.9E-67 |
| 2 | g15508.t1 | Pfam | PF01553 | Acyltransferase | 90 | 189 | 1.0E-12 |
| 1 | g15508.t1 | Pfam | PF16076 | Acyltransferase C-terminus | 245 | 320 | 7.7E-12 |
| 12 | g15508.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 11 | - |
| 16 | g15508.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 12 | 37 | - |
| 15 | g15508.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 38 | 48 | - |
| 19 | g15508.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 49 | 68 | - |
| 13 | g15508.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 69 | 312 | - |
| 18 | g15508.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 313 | 333 | - |
| 14 | g15508.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 334 | 338 | - |
| 17 | g15508.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 339 | 358 | - |
| 11 | g15508.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 359 | 373 | - |
| 10 | g15508.t1 | SMART | SM00563 | plsc_2 | 90 | 212 | 6.7E-6 |
| 9 | g15508.t1 | SUPERFAMILY | SSF69593 | Glycerol-3-phosphate (1)-acyltransferase | 23 | 185 | 2.88E-7 |
| 8 | g15508.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 12 | 34 | - |
| 7 | g15508.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 49 | 68 | - |
| 6 | g15508.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 310 | 332 | - |
| 5 | g15508.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 336 | 358 | - |
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:0016746 | 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. There were no conditions that were differentially expressed