General information for g12185.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as cAMP-specific 3’,5’-cyclic phosphodiesterase.
Parent gene
- The parent gene g12185 is located on chr_1: 21599379..21613113 (+ 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_1 | g12185 | g12185.t1 | isoform | g12185.t1 | 21599379 | 21613113 |
| chr_1 | g12185 | g12185.t1 | exon | g12185.t1.exon1 | 21599379 | 21600058 |
| chr_1 | g12185 | g12185.t1 | cds | g12185.t1.CDS1 | 21599379 | 21600058 |
| chr_1 | g12185 | g12185.t1 | exon | g12185.t1.exon2 | 21606087 | 21606260 |
| chr_1 | g12185 | g12185.t1 | cds | g12185.t1.CDS2 | 21606087 | 21606260 |
| chr_1 | g12185 | g12185.t1 | exon | g12185.t1.exon3 | 21606316 | 21606477 |
| chr_1 | g12185 | g12185.t1 | cds | g12185.t1.CDS3 | 21606316 | 21606477 |
| chr_1 | g12185 | g12185.t1 | exon | g12185.t1.exon4 | 21606538 | 21606721 |
| chr_1 | g12185 | g12185.t1 | cds | g12185.t1.CDS4 | 21606538 | 21606721 |
| chr_1 | g12185 | g12185.t1 | exon | g12185.t1.exon5 | 21606995 | 21607088 |
| chr_1 | g12185 | g12185.t1 | cds | g12185.t1.CDS5 | 21606995 | 21607088 |
| chr_1 | g12185 | g12185.t1 | exon | g12185.t1.exon6 | 21607159 | 21607460 |
| chr_1 | g12185 | g12185.t1 | cds | g12185.t1.CDS6 | 21607159 | 21607460 |
| chr_1 | g12185 | g12185.t1 | exon | g12185.t1.exon7 | 21611135 | 21611399 |
| chr_1 | g12185 | g12185.t1 | cds | g12185.t1.CDS7 | 21611135 | 21611399 |
| chr_1 | g12185 | g12185.t1 | exon | g12185.t1.exon8 | 21611555 | 21611669 |
| chr_1 | g12185 | g12185.t1 | cds | g12185.t1.CDS8 | 21611555 | 21611669 |
| chr_1 | g12185 | g12185.t1 | exon | g12185.t1.exon9 | 21612079 | 21612197 |
| chr_1 | g12185 | g12185.t1 | cds | g12185.t1.CDS9 | 21612079 | 21612197 |
| chr_1 | g12185 | g12185.t1 | exon | g12185.t1.exon10 | 21612268 | 21612662 |
| chr_1 | g12185 | g12185.t1 | cds | g12185.t1.CDS10 | 21612268 | 21612662 |
| chr_1 | g12185 | g12185.t1 | exon | g12185.t1.exon11 | 21612994 | 21613113 |
| chr_1 | g12185 | g12185.t1 | cds | g12185.t1.CDS11 | 21612994 | 21613113 |
| chr_1 | g12185 | g12185.t1 | TTS | g12185.t1 | 21614128 | 21614128 |
| chr_1 | g12185 | g12185.t1 | TSS | g12185.t1 | NA | NA |
Sequences
>g12185.t1 Gene=g12185 Length=2610
ATGTTACTTACCATAATTATCTTCTACTCGTTCATTGTACGTTGCTTGAAGCGCGAAAAT
AAACTAATTGGAGTGCCGACAAACGGCAAATCACAGTCATCACTGGCCTACACGGATTCC
TCTTCCAATTCAATCTCATCTAACTCAACAGCCACAAACTCGACCTCCTCGAGTGCAGCC
AATTCAATTGCTTACAATCACTTGAGCAAAGGCCATCATAAGCATCATCATCTGCATCAT
TTTCATCAAAAAGAAACGATAGATTGTGAAAAAGAGGAAGGCGAGGAAGAAACTGGCGAG
AAAAGGCAACGAGAAGGAGAGGAAGCAGAAGAAGAAGAAAAGAAAAATTCAGATGATGAA
GTCGCTGATGATAATCAGTTTGACGAGGAAGAGTTTTATAATATAATTGCTACAAAAGCA
GCGGCCTTTCAGTCTAAGCGCAATAGCAGCACCTCAACAGTATCAAGTGGTTCAATGTAC
GATGATACTTATCGAACGAAGCGCCATAGCTTGCGCTCACAGAGTTCAACTTGCTCCGAC
ATCATGGAGACTTCAGTGATGAGCAACACCACGCGTCGTAGCTCGGAGGAAAGTTGTCGA
TTGCAAAATCGTAAATTAAATTATAAAAGCAGACGACATGGCTTCACGACACTAAGCAAA
CGACGGAGAACAACTGGAAGTTTTGATGTCGAAAATGGACAGCGGTCGCCACTGGAAGGT
GGAAGTCCAGCTGCGGCAGGCCTCATACTTCAAAACATGCCGCAGAGGCGCGAATCATTT
CTTTATCGATCTGATTCGGACTTTGAGATGTCACCAAAATCGATGTCACGAAATTCAAGC
ATCGTAAGTGAAAGAATCAAAGAAACCGAATCAGCACAAACGACAGTTATCAGTGCTACA
GCAGAAAGAGCTCATGTGGAAGATTTGATTGTTACACCATTTGCACAAATTTTAGCGAGT
TTACGCTCAGTTAAGAATAATTTGTACAATCTCACCAGCGTTCAGCCATCATCAAATCGA
CCTCGCAGATCACAACCATCGACATCATCACAACAGCCAATGATTTCACGTAACATAGCG
CCTGGGGATGATGGATATATGCGCTTAGCAATGGATACAATTGATGAACTTGAATGGTGC
TTAGAACAATTGGAAACTGTACAGACCCATCGCAGTGTGTCAGACATGGCTTCCCTTAAA
TTCAAACGCATGCTGAATAAGGAGCTGTCACATTTAAGTGAATCGAGCAAATCGGGCAAC
CAAATATCAGAGTATATTTGTTCCACATTTTTGGACAAGCAACAAGAAGTTGACGTCCAA
ACTTTCGAGAATCAACCAACTCCATCATCATCATCAAATGCCCAAAGAACGCGCTCGCCA
CGCACAATGTCACAAATATCGGGCTTTAAAAGGCCACTCATGCACACCAATTCATTCACA
AGTGATCGCTTGCCACTCTATGGCGTAGAAACACCACATGAAGCTACATTGGGCGCAATG
CTCAACGATGTAAATACTTGGGGCATAGACATCTTCAAAATTGGTACATTAAGTTGTAAT
CGACCGCTGACGTGTGTTGCCTATCAAATTTTTCAGGATCGCGAAATTCTCAATACATTG
ATGGTTCCAGCCAAAGTTTTTCTCGCATTTATGAGCACATTGGAGGATCATTATGTCAAA
GACAATCCATTTCACAACTCGTTGCATGCGGCTGATGTGACGCAAAGTTGCAATGTTTTA
CTCAATACGCCTGCTTTAGAGAACGTGTTTACACCATTGGAAATTTGCGCGGCACTCTTT
GCTGCATGCATACATGATGTTGATCATCCTGGTCTAACAAATCAATTTCTCATAAATTCA
AGCTCAGAGCTGGCAATTATGTACAATGATGAGTCAGTGCTCGAAAATCATCATTTAGCC
GTTGCCTTTAAGTTGCTGCAGAATGAAGAGTGTGATATCTTTCAGAATCTTCAAAAAAAA
CAACGTCAAACATTACGCAAGATGGTTATCGACATGGTTTTGTCAACCGACATGTCAAAG
CATATGACATTGCTTGCTGATTTAAAGACAATGGTTGAAACGAAAAAAGTTGCTGGATCT
GGTGTATTGTTATTAGACAATTACACAGATCGCATACAGGTGCTGGAAAACTTGGTGCAT
TGTGCAGATTTAAGCAATCCAACGAAGCCGTTGCCACTGTATCGACGCTGGGTGTCGTTA
TTGATGGAGGAGTTCTTTTTGCAGGGCGATAAGGAACGTGCGGCTGGCATGGATATAAGT
CCAATGTGTGATCGACACAATGCGACAGTGGAAAAGTCTCAGGTCGGCTTCATCGACTAT
ATTGTTCATCCGTTATGGGAGACATGGGCTGATTTAGTTCATCCTGATGCACAAGATATT
CTCGATATGCTCGAAGAGAATCGTGATTATTATCAAAGTCTGATACCGCCATCACCAACC
GAAACTGATGATGAAAAAATACGCTTTCAAGTAACTTTAGAGGAAGAGAGTATCTCAGAT
AATGACGATGGAAAGGAAGATGAGGAAGAAAATCGTGCTGCTACGTCTTCACATCCTGAA
GACATTGAAGAAGAAGCAGACGATGAGTAA
>g12185.t1 Gene=g12185 Length=869
MLLTIIIFYSFIVRCLKRENKLIGVPTNGKSQSSLAYTDSSSNSISSNSTATNSTSSSAA
NSIAYNHLSKGHHKHHHLHHFHQKETIDCEKEEGEEETGEKRQREGEEAEEEEKKNSDDE
VADDNQFDEEEFYNIIATKAAAFQSKRNSSTSTVSSGSMYDDTYRTKRHSLRSQSSTCSD
IMETSVMSNTTRRSSEESCRLQNRKLNYKSRRHGFTTLSKRRRTTGSFDVENGQRSPLEG
GSPAAAGLILQNMPQRRESFLYRSDSDFEMSPKSMSRNSSIVSERIKETESAQTTVISAT
AERAHVEDLIVTPFAQILASLRSVKNNLYNLTSVQPSSNRPRRSQPSTSSQQPMISRNIA
PGDDGYMRLAMDTIDELEWCLEQLETVQTHRSVSDMASLKFKRMLNKELSHLSESSKSGN
QISEYICSTFLDKQQEVDVQTFENQPTPSSSSNAQRTRSPRTMSQISGFKRPLMHTNSFT
SDRLPLYGVETPHEATLGAMLNDVNTWGIDIFKIGTLSCNRPLTCVAYQIFQDREILNTL
MVPAKVFLAFMSTLEDHYVKDNPFHNSLHAADVTQSCNVLLNTPALENVFTPLEICAALF
AACIHDVDHPGLTNQFLINSSSELAIMYNDESVLENHHLAVAFKLLQNEECDIFQNLQKK
QRQTLRKMVIDMVLSTDMSKHMTLLADLKTMVETKKVAGSGVLLLDNYTDRIQVLENLVH
CADLSNPTKPLPLYRRWVSLLMEEFFLQGDKERAAGMDISPMCDRHNATVEKSQVGFIDY
IVHPLWETWADLVHPDAQDILDMLEENRDYYQSLIPPSPTETDDEKIRFQVTLEEESISD
NDDGKEDEEENRAATSSHPEDIEEEADDE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 19 | g12185.t1 | CDD | cd00077 | HDc | 565 | 746 | 7.40364E-12 |
| 13 | g12185.t1 | Gene3D | G3DSA:1.10.1300.10 | Catalytic domain of cyclic nucleotide phosphodiesterase 4b2b | 494 | 838 | 1.1E-144 |
| 28 | g12185.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 30 | 56 | - |
| 22 | g12185.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 71 | 127 | - |
| 27 | g12185.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 82 | 111 | - |
| 29 | g12185.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 112 | 127 | - |
| 23 | g12185.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 332 | 357 | - |
| 25 | g12185.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 332 | 363 | - |
| 26 | g12185.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 439 | 464 | - |
| 24 | g12185.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 833 | 869 | - |
| 3 | g12185.t1 | PANTHER | PTHR11347 | CYCLIC NUCLEOTIDE PHOSPHODIESTERASE | 168 | 831 | 4.3E-277 |
| 4 | g12185.t1 | PANTHER | PTHR11347:SF74 | CAMP-SPECIFIC 3’,5’-CYCLIC PHOSPHODIESTERASE 4A | 168 | 831 | 4.3E-277 |
| 7 | g12185.t1 | PRINTS | PR00387 | 3’5’-cyclic nucleotide phosphodiesterase signature | 560 | 573 | 5.2E-32 |
| 10 | g12185.t1 | PRINTS | PR00387 | 3’5’-cyclic nucleotide phosphodiesterase signature | 591 | 604 | 5.2E-32 |
| 6 | g12185.t1 | PRINTS | PR00387 | 3’5’-cyclic nucleotide phosphodiesterase signature | 605 | 620 | 5.2E-32 |
| 5 | g12185.t1 | PRINTS | PR00387 | 3’5’-cyclic nucleotide phosphodiesterase signature | 632 | 648 | 5.2E-32 |
| 8 | g12185.t1 | PRINTS | PR00387 | 3’5’-cyclic nucleotide phosphodiesterase signature | 719 | 732 | 5.2E-32 |
| 9 | g12185.t1 | PRINTS | PR00387 | 3’5’-cyclic nucleotide phosphodiesterase signature | 736 | 752 | 5.2E-32 |
| 1 | g12185.t1 | Pfam | PF18100 | Phosphodiesterase 4 upstream conserved regions (UCR) | 311 | 432 | 1.6E-51 |
| 2 | g12185.t1 | Pfam | PF00233 | 3’5’-cyclic nucleotide phosphodiesterase | 564 | 804 | 6.9E-91 |
| 15 | g12185.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 17 | - |
| 16 | g12185.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 1 | - |
| 17 | g12185.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 2 | 13 | - |
| 18 | g12185.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 14 | 17 | - |
| 14 | g12185.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 18 | 869 | - |
| 21 | g12185.t1 | ProSitePatterns | PS00126 | 3’5’-cyclic nucleotide phosphodiesterase domain signature. | 605 | 616 | - |
| 30 | g12185.t1 | ProSiteProfiles | PS51845 | 3’5’-cyclic nucleotide phosphodiesterase domain profile. | 489 | 818 | 146.624 |
| 20 | g12185.t1 | SMART | SM00471 | hd_13 | 562 | 737 | 2.5E-4 |
| 11 | g12185.t1 | SUPERFAMILY | SSF109604 | HD-domain/PDEase-like | 496 | 827 | 6.28E-122 |
| 12 | g12185.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 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:0008081 | phosphoric diester hydrolase activity | MF |
| GO:0007165 | signal transduction | BP |
| GO:0004114 | 3’,5’-cyclic-nucleotide phosphodiesterase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K13293 (cAMP-specific phosphodiesterase 4)
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