General information for g3603.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Phospholipase D1.
Parent gene
- The parent gene g3603 is located on chr_3: 26674753..26677338 (- 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 | g3603 | g3603.t1 | isoform | g3603.t1 | 26671993 | 26677338 |
| chr_3 | g3603 | g3603.t1 | exon | g3603.t1.exon1 | 26671993 | 26672671 |
| chr_3 | g3603 | g3603.t1 | cds | g3603.t1.CDS1 | 26671993 | 26672671 |
| chr_3 | g3603 | g3603.t1 | exon | g3603.t1.exon2 | 26672736 | 26672805 |
| chr_3 | g3603 | g3603.t1 | cds | g3603.t1.CDS2 | 26672736 | 26672805 |
| chr_3 | g3603 | g3603.t1 | exon | g3603.t1.exon3 | 26672864 | 26674157 |
| chr_3 | g3603 | g3603.t1 | cds | g3603.t1.CDS3 | 26672864 | 26674157 |
| chr_3 | g3603 | g3603.t1 | exon | g3603.t1.exon4 | 26674222 | 26675786 |
| chr_3 | g3603 | g3603.t1 | cds | g3603.t1.CDS4 | 26674222 | 26675786 |
| chr_3 | g3603 | g3603.t1 | exon | g3603.t1.exon5 | 26677266 | 26677338 |
| chr_3 | g3603 | g3603.t1 | cds | g3603.t1.CDS5 | 26677266 | 26677338 |
| chr_3 | g3603 | g3603.t1 | TSS | g3603.t1 | 26677457 | 26677457 |
| chr_3 | g3603 | g3603.t1 | TTS | g3603.t1 | NA | NA |
Sequences
>g3603.t1 Gene=g3603 Length=3681
ATGCGACGGAGTGAATTAAGAAAAGAATTTCGTCATCATTCTCGTTCCATCAGTCAAATG
GTGGAGGAAATGGAACGAATTGAAGCAAGTAAGAATAACTCGTTAAGTGGTGAAGTCAAT
TACGGAATGGAACATTCAAATACAGAACTTAATCAATTAGGAGCTATGGCAAATGCTCTA
GGTAATGAGCTTGATTTGACTGATGCTACGCTTTCACCTGATTCTGAATACGACGAAACA
TTAGCCTTTCCTGATGACTCATTTTCATTCATCACATCGATTGGTCGAAATCCGGTTCTA
GTTAAGCGACATACAAAAAATGGCGAAAATCATGAAAGCAACGATAGTTCTAGCTCTGAT
GATGAAATCGATAACCGATCGACTGTCGCAAAACCTAAAAATGAACTGCCATATTCATAC
ATCTATTCTACTCCCGTAAAATTTTCATCGTTCGATCGAAAAATTTTCATCCCTAACACT
CAAATTCACGTGTCCATTACTGATTATGAAAGAAGCATGACTGCTCATCTTTTCAACCCA
ATTTTATATCAAATACAACTGACACATGGTAGCTTTACATGGACGATCAAAAAACGCTAT
AAAGATTTTCTAAATCTACACAACTCATTAAAATTCTTTAGAACGTCCTTGAATTTTCCT
CTTCCATCACGCACACATCGTGAGATACGCAGTAGCTTTCGGCATAATAATAAAATTTCA
GTTTCCACAATCAATAACGATTCAAATACTAATATTGCAACAAGCAATAACGATGCAAGT
GCTATTGCCAATGATAATGATAAAAAAAGACAGAAGAAAAAGAAAAGAAAGAAGGGATCA
TTACCCCGTTTTCCAAAACGACCTGATACTCTTATATCAACAGATCAAATTCCGATTAGA
ATAAAACAACTTGAAAATTACCTCTACAATTTATTAAACATTACTCTTTATCGCCATCAT
CATGACACAATAAATTTTTTGGAAGTTTCAAACTTTTCCTTCATTGCGGCTTTAGGTGAA
AAGGGTCGTGAAATTATGATAAAAAAAAGAACTGGTAGTACAAATCCAGGTCAAAAAAAG
TGTAATCTACTTGGATGTTTTACATTGGGTTGCTGTATAAGATGTAATTATTTCTGTTCT
GAAAGCTGCTGCAGTAGTTGGCAAGGACGGTGGCTTTTTGTGAAAGAAACTTTTTTTGGA
TTGGTTCGTCCGAAAGATGGAACTATTCGAAGTATAATATTATTTGATCAAGGCTTTGAG
ACGTCTCTTGGTATGTATAGTACAGGGTTACGAACTGGCCTTCAAATTGCCACAAATTCA
CGCTATATTGTACTGAAATTTCCAACAAAAAAATTAGCAAAAGAGTGGAACAATTATTTC
AAACAAATTGCTAATTCTACTGCACGTGATTTTACATCACCAAATCCACATCAATCGTTT
GCACCAGTTCGTACATCAACTCTAGCGTCGTGGTTTGTTGATGGGTCAAATTATATGAGT
GCAGTGGCAGATGCTCTTGAAGGTGCACTCGAAGAGATTTTTATTGCCGATTGGTGGTTA
AGTCCAGAAATTTATATGAAACGCCCAACACTTGATGGAGAATATTGGCGCTTGGATAAA
ATTTTATTGAGAAAAGCTCGTCAAGGTGTAAAAATATTTGTTCTACTTTACAAAGAAGTT
GAAATGGCTCTTGGTTTGAATAGCTATTACAGCAAACAGAGACTTGTTCAGTTGCATGAA
AATATTAAAGTTTTACGTCATCCTGATCATGTTAGAGTTGGTGTTTTCTTTTGGGCTCAT
CATGAGAAACTTGTTGTTATTGACCAAACTTATGCATTTGTTGGTGGCATAGATTTAGCT
TATGGAAGATGGGATGATCATAAACATCGACTTACAGACATGGGAAGTATTAGTATTTCA
ACAAAGACAACAAGTCGACGATCTTTTGTGATGATTGAGAATCCATTACGCTCTCTAATT
GTTCAATCAACTGAAATCGTACAAGCAACTACTACGACAAGATCTGAAAATCAAAATATG
AAATCAGAAGCGATCACTGATTCAATGGCAAATGGCGATAAGAGAGAAAATGAACCAATA
GGGCAGGAAATTGATGAACACATTAAAAAGAACACTCCGGAAATGAAACGTAAGGGTATT
ACTGAAAAAATTAAAGACAATATGAAAAATACAGGAAGAGAAATAATGCATCGTTTGACA
TTAACATCAGATGAGAATCAAGCAGCAGTTGAACAAGTACAACAACAACCAGTCACAATT
AAAGTCAATGATGTTGAGAATGGAATTGAGAAAAGTCCACCAACATATTTTGAGCTCGAT
GGACAGTCAAAGCTGTGGATAGGAAAGGATTACACAAATTTTATTTTTAAAGATTTTGTT
GAGCTCAATCAACCGTTTACTGATTTAATTGATCGAACAAAAACTCCTCGTATGCCTTGG
CATGATATTGCAAGTATGGTTGTAGGAGCTTCCGCAAGAGATATTTCAAGGCATTTTATT
GAGCGCTGGAATGCATGTAAATTAGAAAAAGCACGTGAAAATATAAGTTATCCATATTTA
TTGCCTAAAAGTAATAACGATATTCGAATAGATGCTGATTTTTGGAATAAATCCAAAGTA
AAAATGGAACGTGTTACAGCACAAGTTTTGAGAAGTGCATCAAATTGGAGTTGTGGGTTT
ATTGACACTGATTATGTAGAACAGAGTATTCATGAAGCTTATGTTGAAACAATTTCACGA
TCACAACATTATATCTATATTGAAAACCAATTCTTCATTTCATTAGGATTTCCTGATACT
GTTGTAAAAAATCAAATTTCTGAAAGTCTTTACAAACGAATATTAAGAGCTCATCGTGAG
AAAAAAGTATTTCGAGTATACATTGTGTTGCCATTGTTGCCTGGATTTGAAGGTGATGTA
GCGGGTGTTACTGGAACAGCTTTGCGAGTAATTACTCATTGGAATTATGCATCAATATGT
CGAGCTGAAAATTCGATTTTTAAACGACTTTTGAGAGCTGGAATAAAAAATCCTTATGAA
TATATTTCATTTCACTCTTTACGAACATTTGCAACATTGAATGAAGTGCCGGTTACAGAA
CTAATTTACGTTCATTCAAAGCTTATGATTGTCGATGATAAAACCGTAATAATTGGTTCA
GCAAACATAAATGATCGATCATTAATTGGAAAAAGAGATAGTGAAGTAGCTGTTTTGATA
AATGATGAAGCTTTTGATGACGGGAAAATGAATGGAGAAAGCTTTCCATCGGGTCATTTT
GCAGGAAAACTAAGAAGATATTTATTTAGAGAGCATCTTGGCTTACTTGAGAACAAAAAT
AATGAAAATATAGATATAAATGATCCAATATCAGATGATTTTTACAAAAACGTTTGGCAA
AAGGTGTCGAAAGAAAATACAAAAATTTTCGATGAAGTTTTCAAATGTATCCCAAACGAT
TCAGTTCGTACGATAGCTGCTTTAAAAAAATATAATGATGATCCAGCGCTATGTAAAACT
GACGTGGAAAAGGCAGAAGAAAGATTGAAAAACATTCGAGGTCATTTAGTTGATCTTCCT
TTAGATTTCTTATGTGATGAAATTTTAACACCTTCTGGAACTAGCAAAGAAGGATTATTA
AGTACGGTAGTTTGGACATAA
>g3603.t1 Gene=g3603 Length=1226
MRRSELRKEFRHHSRSISQMVEEMERIEASKNNSLSGEVNYGMEHSNTELNQLGAMANAL
GNELDLTDATLSPDSEYDETLAFPDDSFSFITSIGRNPVLVKRHTKNGENHESNDSSSSD
DEIDNRSTVAKPKNELPYSYIYSTPVKFSSFDRKIFIPNTQIHVSITDYERSMTAHLFNP
ILYQIQLTHGSFTWTIKKRYKDFLNLHNSLKFFRTSLNFPLPSRTHREIRSSFRHNNKIS
VSTINNDSNTNIATSNNDASAIANDNDKKRQKKKKRKKGSLPRFPKRPDTLISTDQIPIR
IKQLENYLYNLLNITLYRHHHDTINFLEVSNFSFIAALGEKGREIMIKKRTGSTNPGQKK
CNLLGCFTLGCCIRCNYFCSESCCSSWQGRWLFVKETFFGLVRPKDGTIRSIILFDQGFE
TSLGMYSTGLRTGLQIATNSRYIVLKFPTKKLAKEWNNYFKQIANSTARDFTSPNPHQSF
APVRTSTLASWFVDGSNYMSAVADALEGALEEIFIADWWLSPEIYMKRPTLDGEYWRLDK
ILLRKARQGVKIFVLLYKEVEMALGLNSYYSKQRLVQLHENIKVLRHPDHVRVGVFFWAH
HEKLVVIDQTYAFVGGIDLAYGRWDDHKHRLTDMGSISISTKTTSRRSFVMIENPLRSLI
VQSTEIVQATTTTRSENQNMKSEAITDSMANGDKRENEPIGQEIDEHIKKNTPEMKRKGI
TEKIKDNMKNTGREIMHRLTLTSDENQAAVEQVQQQPVTIKVNDVENGIEKSPPTYFELD
GQSKLWIGKDYTNFIFKDFVELNQPFTDLIDRTKTPRMPWHDIASMVVGASARDISRHFI
ERWNACKLEKARENISYPYLLPKSNNDIRIDADFWNKSKVKMERVTAQVLRSASNWSCGF
IDTDYVEQSIHEAYVETISRSQHYIYIENQFFISLGFPDTVVKNQISESLYKRILRAHRE
KKVFRVYIVLPLLPGFEGDVAGVTGTALRVITHWNYASICRAENSIFKRLLRAGIKNPYE
YISFHSLRTFATLNEVPVTELIYVHSKLMIVDDKTVIIGSANINDRSLIGKRDSEVAVLI
NDEAFDDGKMNGESFPSGHFAGKLRRYLFREHLGLLENKNNENIDINDPISDDFYKNVWQ
KVSKENTKIFDEVFKCIPNDSVRTIAALKKYNDDPALCKTDVEKAEERLKNIRGHLVDLP
LDFLCDEILTPSGTSKEGLLSTVVWT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 17 | g3603.t1 | CDD | cd06895 | PX_PLD | 159 | 330 | 9.88709E-47 |
| 18 | g3603.t1 | CDD | cd01254 | PH_PLD | 318 | 463 | 2.06606E-35 |
| 16 | g3603.t1 | CDD | cd09138 | PLDc_vPLD1_2_yPLD_like_1 | 489 | 634 | 1.21212E-90 |
| 15 | g3603.t1 | CDD | cd09141 | PLDc_vPLD1_2_yPLD_like_2 | 903 | 1083 | 2.56522E-98 |
| 13 | g3603.t1 | Gene3D | G3DSA:3.30.870.10 | Endonuclease Chain A | 483 | 638 | 7.8E-16 |
| 12 | g3603.t1 | Gene3D | G3DSA:3.30.870.10 | Endonuclease Chain A | 871 | 1089 | 4.2E-31 |
| 22 | g3603.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 104 | 129 | - |
| 23 | g3603.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 252 | 285 | - |
| 4 | g3603.t1 | PANTHER | PTHR18896:SF57 | PHOSPHOLIPASE D1 | 144 | 252 | 1.4E-290 |
| 6 | g3603.t1 | PANTHER | PTHR18896 | PHOSPHOLIPASE D | 144 | 252 | 1.4E-290 |
| 5 | g3603.t1 | PANTHER | PTHR18896:SF57 | PHOSPHOLIPASE D1 | 267 | 1222 | 1.4E-290 |
| 7 | g3603.t1 | PANTHER | PTHR18896 | PHOSPHOLIPASE D | 267 | 1222 | 1.4E-290 |
| 14 | g3603.t1 | PIRSF | PIRSF009376 | PLD_euk | 4 | 1226 | 0.0 |
| 2 | g3603.t1 | Pfam | PF00787 | PX domain | 188 | 329 | 7.6E-10 |
| 3 | g3603.t1 | Pfam | PF00614 | Phospholipase D Active site motif | 597 | 623 | 8.9E-8 |
| 1 | g3603.t1 | Pfam | PF13091 | PLD-like domain | 915 | 1084 | 3.1E-11 |
| 26 | g3603.t1 | ProSiteProfiles | PS50195 | PX domain profile. | 161 | 333 | 11.339 |
| 24 | g3603.t1 | ProSiteProfiles | PS50035 | Phospholipase D phosphodiesterase active site profile. | 596 | 623 | 13.238 |
| 25 | g3603.t1 | ProSiteProfiles | PS50035 | Phospholipase D phosphodiesterase active site profile. | 1040 | 1067 | 15.45 |
| 21 | g3603.t1 | SMART | SM00312 | PX_2 | 158 | 330 | 4.0E-8 |
| 19 | g3603.t1 | SMART | SM00155 | pld_4 | 596 | 623 | 5.9E-6 |
| 20 | g3603.t1 | SMART | SM00155 | pld_4 | 1040 | 1067 | 5.5E-9 |
| 9 | g3603.t1 | SUPERFAMILY | SSF64268 | PX domain | 158 | 226 | 1.09E-10 |
| 8 | g3603.t1 | SUPERFAMILY | SSF64268 | PX domain | 274 | 334 | 1.6E-5 |
| 11 | g3603.t1 | SUPERFAMILY | SSF56024 | Phospholipase D/nuclease | 443 | 868 | 5.89E-35 |
| 10 | g3603.t1 | SUPERFAMILY | SSF56024 | Phospholipase D/nuclease | 907 | 1085 | 1.0E-26 |
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:0048017 | inositol lipid-mediated signaling | BP |
| GO:0004630 | phospholipase D activity | MF |
| GO:0003824 | catalytic activity | MF |
| GO:0035091 | phosphatidylinositol binding | MF |
| GO:0006654 | phosphatidic acid biosynthetic process | BP |
KEGG
Orthology
- This transcript has been annotated with K01115 (phospholipase D1/2)
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.
