General information for g1316.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 delta.
Parent gene
- The parent gene g1316 is located on chr_3: 9613163..9616781 (+ 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 | g1316 | g1316.t1 | isoform | g1316.t1 | 9610430 | 9616781 |
| chr_3 | g1316 | g1316.t1 | exon | g1316.t1.exon1 | 9610430 | 9610598 |
| chr_3 | g1316 | g1316.t1 | cds | g1316.t1.CDS1 | 9610430 | 9610598 |
| chr_3 | g1316 | g1316.t1 | exon | g1316.t1.exon2 | 9611022 | 9611844 |
| chr_3 | g1316 | g1316.t1 | cds | g1316.t1.CDS2 | 9611022 | 9611844 |
| chr_3 | g1316 | g1316.t1 | exon | g1316.t1.exon3 | 9612161 | 9612445 |
| chr_3 | g1316 | g1316.t1 | cds | g1316.t1.CDS3 | 9612161 | 9612445 |
| chr_3 | g1316 | g1316.t1 | exon | g1316.t1.exon4 | 9615182 | 9615375 |
| chr_3 | g1316 | g1316.t1 | cds | g1316.t1.CDS4 | 9615182 | 9615375 |
| chr_3 | g1316 | g1316.t1 | exon | g1316.t1.exon5 | 9616192 | 9616781 |
| chr_3 | g1316 | g1316.t1 | cds | g1316.t1.CDS5 | 9616192 | 9616781 |
| chr_3 | g1316 | g1316.t1 | TSS | g1316.t1 | NA | NA |
| chr_3 | g1316 | g1316.t1 | TTS | g1316.t1 | NA | NA |
Sequences
>g1316.t1 Gene=g1316 Length=2061
ATGAATTATTTGATTGAAGTTTTATTAAAATTTACAATTCTTCTAGTTTTTTTGGCAACT
GCATTTGCAACAAATGTCATTCATTTAATTTTGTTGATTTCTGTTAAACCATTCAATAAA
AGAATTTATTTTCAATTAGTTCAATTTAATAATTGGACTTTTATGGCACAATCAGTTTTC
CTCTATCAATATTGGTCATCATCTGAATTAATTTTCTATTGCAAACAAAGTGACTACGAT
GCCCTTAAGCATAAAAAAGCATTCATAATTGCAAATCACTCTGATCCAGTTAACATCTTG
TTAATGATGGTGACATTGAATCATTTCAATCGACTTGGTAACGACATAAGCTATGGAATG
ACTTGCTTTAAGTTTATTCCATTCATTGGATGGCACATTTATCTTGCTGGACATATTTTG
CTGCAAAAATCTTTCACAAATGATAAGAAATTGATTGAAAAGAGACTGATGGAGGTCAAA
GATAATCCAAATAATGTTTGGATTGTTTTATTGCCTGAAGGTGATCAATTTACTATTGCG
AACTTTTCAAAGTCTGTAAGATATGCTCTAAAAATGAGAAAACAACCATTAATGCATCAT
TTGACACCAAGACATAAAGCTTTCGCAGTGACTTATAAAGAATTGAAAAAACTTGAAGGA
TATTCAATTGTTAATGCTCATATTGCTTACGAAAGAAGTCCAAAGTTTTCAAATTTATTA
CAACAAAAGAAAATTCAAGCTCGAATTTATTTTCAATGTTTTGAATTTAATGAAATTGAA
TCAAATTTCGATGGAATTTATAAACTTTTTCAACAGCAAGACGAACTTCGTGAAAAATTT
CTTAAGTTTGGAAGTTTCAATGAAAATGGAAAATTAAAAGATTTCAAAGAAATTAAAATT
GAAAAAGATCAACGAGTGTTGGTGAATTTCTTAGTTTGGGCAATTTTTTGGTTATTTTTT
GCTATGAGAGTAATTATAAGAAAATTTGAAAGACTCAATTGCTATTTTGAAGATGAACGA
GAATTGAAATTTTTCAAAGTCTACACAAAAGCAAATTGTCAATCAGAAAGCATGTCAGAA
TTTATGATTAAACAATGTGGCTGTGTTGAATTTTTTATGATTCGCAATAAAACAACTAGA
ATTTGTTTAGCAAGTGAAAAATCGTGCTATAATAATGCTAGAAATGAATTTACTAATCAA
ATAAATAAATGTGAATGTTTAGATAGATGCAATTATGTCAAATATAATTTGGAAACTGAA
ATTCGGGATATTCCTATTCGCGATCAAAATAAGTCGACTAAAATTAGCCGAAATTTAGTT
AGTCATCGACTTAAACATATATCGACTTCGGGCTCTGCATATAACTTGACATTTCTTCGT
CAACAGTCAATGATTGATTGGTTTCAACAACAGTATGCAACATGGAATGATGAATTTCAA
GTAAACTTCACAGAAATTCGAGCAGATTTTGAAATAACAAGAACTGATGAAAATTTGAAA
GCTTTAACTTCAATTGAACGTGATTGTTATTTTGAAAAGGAGAAAAAATTGAAATATTTT
AAACTTTATACACAAGAAAATTGTGTTATGGAATGCATTTTTGAATATTTAATTGATAAA
TGTAAATGCATTCACCCAAATCATATTTATGGACCAAAACATGCTTCAATAGAATTTTGT
CAATGGAGAGAAGTTGATTGCATTCAACTCGAACAAGACCGGTATTTTCAAAAATATGGA
AAACTCCTTGAAGAAAACTGCACATGCTTGTCAACTTGTGATTCATTAATTTATCACATT
AGAAAATATCCAACAAATGATGAAAATAATTTAATTGTTATAAATGTCTACAAGAATACT
GATCAGTTGATTTTATATCGAAGATTTCAACTTTTTACATTTTCTGATACAGTTTCTTAT
GTTGGCGGTTTGCTTGGACTTTTTGCTGGAATTTCTATGTTCTCGATAATTGAAATTTTT
TACTTTTTTACTGTTAGAGTTTTTTTTGATATGATAAGATTAATAAGGAATCAAATCATT
AAAAAAATTTGTTTAAATTAG
>g1316.t1 Gene=g1316 Length=686
MNYLIEVLLKFTILLVFLATAFATNVIHLILLISVKPFNKRIYFQLVQFNNWTFMAQSVF
LYQYWSSSELIFYCKQSDYDALKHKKAFIIANHSDPVNILLMMVTLNHFNRLGNDISYGM
TCFKFIPFIGWHIYLAGHILLQKSFTNDKKLIEKRLMEVKDNPNNVWIVLLPEGDQFTIA
NFSKSVRYALKMRKQPLMHHLTPRHKAFAVTYKELKKLEGYSIVNAHIAYERSPKFSNLL
QQKKIQARIYFQCFEFNEIESNFDGIYKLFQQQDELREKFLKFGSFNENGKLKDFKEIKI
EKDQRVLVNFLVWAIFWLFFAMRVIIRKFERLNCYFEDERELKFFKVYTKANCQSESMSE
FMIKQCGCVEFFMIRNKTTRICLASEKSCYNNARNEFTNQINKCECLDRCNYVKYNLETE
IRDIPIRDQNKSTKISRNLVSHRLKHISTSGSAYNLTFLRQQSMIDWFQQQYATWNDEFQ
VNFTEIRADFEITRTDENLKALTSIERDCYFEKEKKLKYFKLYTQENCVMECIFEYLIDK
CKCIHPNHIYGPKHASIEFCQWREVDCIQLEQDRYFQKYGKLLEENCTCLSTCDSLIYHI
RKYPTNDENNLIVINVYKNTDQLILYRRFQLFTFSDTVSYVGGLLGLFAGISMFSIIEIF
YFFTVRVFFDMIRLIRNQIIKKICLN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 28 | g1316.t1 | CDD | cd07990 | LPLAT_LCLAT1-like | 59 | 231 | 5.18176E-27 |
| 14 | g1316.t1 | Gene3D | G3DSA:1.10.287.820 | - | 333 | 410 | 1.3E-12 |
| 12 | g1316.t1 | Gene3D | G3DSA:2.60.470.10 | - | 411 | 455 | 1.3E-12 |
| 13 | g1316.t1 | Gene3D | G3DSA:2.60.470.10 | - | 496 | 630 | 8.9E-17 |
| 15 | g1316.t1 | Gene3D | G3DSA:1.10.287.820 | - | 501 | 593 | 8.9E-17 |
| 16 | g1316.t1 | Gene3D | G3DSA:1.10.287.770 | - | 631 | 660 | 8.9E-17 |
| 4 | g1316.t1 | PANTHER | PTHR11690 | AMILORIDE-SENSITIVE SODIUM CHANNEL-RELATED | 252 | 476 | 5.2E-36 |
| 6 | g1316.t1 | PANTHER | PTHR11690:SF237 | NACH, ISOFORM E-RELATED | 252 | 476 | 5.2E-36 |
| 5 | g1316.t1 | PANTHER | PTHR11690 | AMILORIDE-SENSITIVE SODIUM CHANNEL-RELATED | 492 | 670 | 5.2E-36 |
| 7 | g1316.t1 | PANTHER | PTHR11690:SF237 | NACH, ISOFORM E-RELATED | 492 | 670 | 5.2E-36 |
| 1 | g1316.t1 | Pfam | PF01553 | Acyltransferase | 84 | 177 | 6.5E-5 |
| 3 | g1316.t1 | Pfam | PF00858 | Amiloride-sensitive sodium channel | 328 | 469 | 1.8E-17 |
| 2 | g1316.t1 | Pfam | PF00858 | Amiloride-sensitive sodium channel | 503 | 662 | 7.5E-27 |
| 21 | g1316.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 11 | - |
| 26 | g1316.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 12 | 35 | - |
| 19 | g1316.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 36 | 41 | - |
| 23 | g1316.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 42 | 65 | - |
| 20 | g1316.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 66 | 115 | - |
| 27 | g1316.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 116 | 141 | - |
| 18 | g1316.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 142 | 305 | - |
| 25 | g1316.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 306 | 326 | - |
| 22 | g1316.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 327 | 639 | - |
| 24 | g1316.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 640 | 663 | - |
| 17 | g1316.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 664 | 686 | - |
| 10 | g1316.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 13 | 35 | - |
| 9 | g1316.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 119 | 141 | - |
| 11 | g1316.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 306 | 326 | - |
| 8 | g1316.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 641 | 663 | - |
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:0016020 | membrane | CC |
| GO:0016746 | acyltransferase activity | MF |
| GO:0005272 | sodium channel activity | MF |
| GO:0006814 | sodium ion transport | BP |
KEGG
Orthology
- This transcript has been annotated with K13513 (lysocardiolipin and lysophospholipid acyltransferase [EC:2.3.1.- 2.3.1.51])
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. There were no conditions that were differentially expressed