General information for g4074.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as High affinity cGMP-specific 3’,5’-cyclic phosphodiesterase 9A.
Parent gene
- The parent gene g4074 is located on chr_3: 30404515..30412150 (- 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 | g4074 | g4074.t1 | TTS | g4074.t1 | 30404263 | 30404263 |
| chr_3 | g4074 | g4074.t1 | isoform | g4074.t1 | 30404515 | 30412150 |
| chr_3 | g4074 | g4074.t1 | exon | g4074.t1.exon1 | 30404515 | 30405588 |
| chr_3 | g4074 | g4074.t1 | cds | g4074.t1.CDS1 | 30404515 | 30405588 |
| chr_3 | g4074 | g4074.t1 | exon | g4074.t1.exon2 | 30405645 | 30405891 |
| chr_3 | g4074 | g4074.t1 | cds | g4074.t1.CDS2 | 30405645 | 30405891 |
| chr_3 | g4074 | g4074.t1 | exon | g4074.t1.exon3 | 30405963 | 30406108 |
| chr_3 | g4074 | g4074.t1 | cds | g4074.t1.CDS3 | 30405963 | 30406108 |
| chr_3 | g4074 | g4074.t1 | exon | g4074.t1.exon4 | 30406180 | 30406329 |
| chr_3 | g4074 | g4074.t1 | cds | g4074.t1.CDS4 | 30406180 | 30406329 |
| chr_3 | g4074 | g4074.t1 | exon | g4074.t1.exon5 | 30406986 | 30407112 |
| chr_3 | g4074 | g4074.t1 | cds | g4074.t1.CDS5 | 30406986 | 30407112 |
| chr_3 | g4074 | g4074.t1 | exon | g4074.t1.exon6 | 30407189 | 30407296 |
| chr_3 | g4074 | g4074.t1 | cds | g4074.t1.CDS6 | 30407189 | 30407296 |
| chr_3 | g4074 | g4074.t1 | exon | g4074.t1.exon7 | 30407360 | 30407511 |
| chr_3 | g4074 | g4074.t1 | cds | g4074.t1.CDS7 | 30407360 | 30407511 |
| chr_3 | g4074 | g4074.t1 | exon | g4074.t1.exon8 | 30409078 | 30409403 |
| chr_3 | g4074 | g4074.t1 | cds | g4074.t1.CDS8 | 30409078 | 30409403 |
| chr_3 | g4074 | g4074.t1 | exon | g4074.t1.exon9 | 30411511 | 30412150 |
| chr_3 | g4074 | g4074.t1 | cds | g4074.t1.CDS9 | 30411511 | 30412150 |
| chr_3 | g4074 | g4074.t1 | TSS | g4074.t1 | NA | NA |
Sequences
>g4074.t1 Gene=g4074 Length=2970
ATGTTCCACGCTGAAGCAGAGGCCGTTGATGTTGAGCTATTAGCAGAGTGTGGGCAAATA
GCACAGCGTCTTCGTAGTCTCGAGCAAACGTGGTTATTCGATTTAAAAGAGCTGCAGCGG
AGCTGCTTATGCAATTTTGGCACTCCGCCCGCGCTCGCATCTTCAAAGAAATTGAGTGAT
ATTTATGACGTAAACGACAACACACCGGGCAGTGAGCTTAGTCCAGAATTAATTGAACAC
GTTCGGAATTTGGAAGATATTGCCATTGGCATTTATTATCAGCGTGAATTACAAAGACAA
GCGTTACTTCAAGAAGGAAACGCAAACGCCAGACGAGCGCCTTTAGGTAGTACTATGAAT
TATTCGGTGACGTCGGGCAGTAGTAGTAATAACCATGACCTCACATCACCCACACCATCA
ACGACTGCCCAAAATGATACCAACGTTAGCAGCAGCAGAGACAATAATAAAAACGATGAC
TGCGATAAGGACCAAAAGGCTGGCTTAGCAAATGGCAATAGCCAACAATACATTCATCAG
CAGCAACAGTTGTGCAATAAAATTACCAATGATGACTTGCAGTTGCTTCTTCGTGAGTTG
AGACGAAAAGTCGACTATACTGAGAAAATGAATTGGTTATGCCTGTCAAATCGACCAAAT
CCTCCACCTCATCGTAAAAGCAGCCTCCCAAAGCATAGCGATGTCAAGTTGAAATTCCTG
GAAATTTGTCATACCACACTGTCAGATGATGTAAAAGCTGCCCTACGTTTACCTTCATTT
GATTCATATGATTGGGAGGACTATGAAATATTGCATTTAATGGAGACAATGTTCATTGAA
TTGAATTTCATCGAGAAATTTCACATCTCACCAATCAGACTTCGTGAATGGCTTTATGAG
GTCTACAAGCATTATAATGATGTTCCTTTTCACAATTTTCGGCATTGCTTTTGTGTTGCT
CAAATGATGTATGCAATTACATGGCAAACAAATTTAATTTGTCGTCTTGGTGATTTGGAT
GTCTTTATTTTATTAATATCATGCATTTGTCATGATTTAGACCATCCTGGATATAATAAT
ATTTATCAAATAAACGCGAGGACTGAATTAGCCTTGAGATATAATGACATTTCATGCTTA
GAAAATCATCATTGCTCAATTGCCTTTCGATTGCTGGAATATCCAGAATGTAATTTATTG
GAAGACGTCACCAAAGACATGTACAAGGAAATACGTGAGGGCATTATACGGTGCATATTG
GCTACAGATATGGCGCGACACAATGAAATATTGACACAATTCCGAGAAATTATTCCCGTC
TTTGACTACAGCAACGTTTCACACAAAAATCTGCTTTGTATGGTGCTAATAAAGGTCGCT
GATATCTCAAATGAGGCGCGGCCAATGGATATTGCAGAGCCATGGCTTGACCGTTTGCTG
CAAGAATTTTTCGCACAGAGTGCTGCTGAAAAGTTAGAAGGACTTCCTGTGACGCCATTT
ATGGATCCTGATAAAGTCAGCAAGCCAGGAAGTCAAGTACGTTTTATAGGATTGGTGCTA
TTGCCTTTATTTGAGGCACTTGGAGAATTGCTTCCGGAGCTTATTGATTTTATCATTATA
CCAGTTCGAGTAGCATTGGACTTTTATAAACGCTTGAATGATGCTTCACAGAAGAATCGA
AAATCGCTGGTCGAAGAAGGTTCTTCCGATGGAAATGACGAAATTATACCAAGATCTCAA
TCAGGAATTAGTGTACGATCACGTAGAAGTATTCCATCACAGAAATCAGCTTCGAGAAAT
TCAGTTGATGAAGAGCAATTGGTCATTACAGCTGAACTACAAGATTTACCAGAAGGTAGT
GAAAGTGGTGATTCTGAAACAGCTACTGAAGTTGATGTCGCAGAAAAAGCTTCCAAATTC
AAAGTGGATACAGAAAGTCGCACGAAATTTAATATGATTCATCGTAAGGGTCATCATCGT
GACAAGCGTCCCTCGATGGTTAGTGAGATGGGCGGACGAATGCGTGGATCATACGGTAAC
ATCTTACAAAATAATTACAATTCACGCACAAATACATTCGGGTCAAACCGCGCAATTAGT
CTAGATCATTATAGTAATCATCGTCGTATGTCGGATGGCATTCAGACTGTTACTTCGGAC
TCGACTGTTTATTATCATCAACGCTTACACGATCAAGATAGCTTACTTCGTGCTGCAGCA
GCAACAGTTGGCAAGAAAAAAAGTTCTAGCTGTCAGGGCTCAACAGATATCAAGTTGTTA
GTGAATGATGGTGAAGACACTTCTACTGTTGCCTCGATGAAGACAACAAATATGAATGCC
AAATTCCATATCATGACGATGGCTGCTACTGCTGACCACAGTGATACAAACAGGGTACAA
TCACCAACTATAAATAATAATAATAATAACAATAATAATAATAGTAATAATAATAATGCT
AGTAACAGTAGTAGTCTAACCAGTAAAAGCGTAAAGTCGAAATTAAATAGTAGCGTGTCA
TGTAGTAGTAACAGTCCAAAATCTATCATTACACGCTTGCGACAACTCACCGGTAGATTG
TCATTTTCATTTGATAAAGACTCACGAAGAATGAGTGGTGGTGGTGGTGGGGTTGCGACT
CAAACTCAAACCATTATAAAAACTTCACCAAGCTCCATAAATTCTAGCTCAAAAAACAAT
AATATTCTGCTGCCAAATACATGTGTGTGCAGTAATACAAAGAGTGCTCCCATCGATGTT
ACAACAACTTCAAGAAATCGAGCATATAGTCTTGATGTGCCGCCAACTCGTTACAATTAT
AATAGCAGTGCTGGAAGCAGTAACAATGGCAGCCATAGGAGTCTTTCTTCAAATCGTGCC
AATGATGACGTTGATGATTCAACAACTGACACAAATAGCGTTTTCGCTTCGAAAAAAATG
AGTTCTGAAGTTGAGTCCATGGACATTTGA
>g4074.t1 Gene=g4074 Length=989
MFHAEAEAVDVELLAECGQIAQRLRSLEQTWLFDLKELQRSCLCNFGTPPALASSKKLSD
IYDVNDNTPGSELSPELIEHVRNLEDIAIGIYYQRELQRQALLQEGNANARRAPLGSTMN
YSVTSGSSSNNHDLTSPTPSTTAQNDTNVSSSRDNNKNDDCDKDQKAGLANGNSQQYIHQ
QQQLCNKITNDDLQLLLRELRRKVDYTEKMNWLCLSNRPNPPPHRKSSLPKHSDVKLKFL
EICHTTLSDDVKAALRLPSFDSYDWEDYEILHLMETMFIELNFIEKFHISPIRLREWLYE
VYKHYNDVPFHNFRHCFCVAQMMYAITWQTNLICRLGDLDVFILLISCICHDLDHPGYNN
IYQINARTELALRYNDISCLENHHCSIAFRLLEYPECNLLEDVTKDMYKEIREGIIRCIL
ATDMARHNEILTQFREIIPVFDYSNVSHKNLLCMVLIKVADISNEARPMDIAEPWLDRLL
QEFFAQSAAEKLEGLPVTPFMDPDKVSKPGSQVRFIGLVLLPLFEALGELLPELIDFIII
PVRVALDFYKRLNDASQKNRKSLVEEGSSDGNDEIIPRSQSGISVRSRRSIPSQKSASRN
SVDEEQLVITAELQDLPEGSESGDSETATEVDVAEKASKFKVDTESRTKFNMIHRKGHHR
DKRPSMVSEMGGRMRGSYGNILQNNYNSRTNTFGSNRAISLDHYSNHRRMSDGIQTVTSD
STVYYHQRLHDQDSLLRAAAATVGKKKSSSCQGSTDIKLLVNDGEDTSTVASMKTTNMNA
KFHIMTMAATADHSDTNRVQSPTINNNNNNNNNNSNNNNASNSSSLTSKSVKSKLNSSVS
CSSNSPKSIITRLRQLTGRLSFSFDKDSRRMSGGGGGVATQTQTIIKTSPSSINSSSKNN
NILLPNTCVCSNTKSAPIDVTTTSRNRAYSLDVPPTRYNYNSSAGSSNNGSHRSLSSNRA
NDDVDDSTTDTNSVFASKKMSSEVESMDI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g4074.t1 | CDD | cd00077 | HDc | 311 | 484 | 5.4593E-13 |
| 12 | g4074.t1 | Coils | Coil | Coil | 190 | 210 | - |
| 11 | g4074.t1 | Gene3D | G3DSA:1.10.1300.10 | Catalytic domain of cyclic nucleotide phosphodiesterase 4b2b | 245 | 564 | 1.8E-114 |
| 21 | g4074.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 122 | 159 | - |
| 22 | g4074.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 122 | 152 | - |
| 17 | g4074.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 562 | 634 | - |
| 16 | g4074.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 573 | 607 | - |
| 20 | g4074.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 806 | 831 | - |
| 18 | g4074.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 927 | 989 | - |
| 19 | g4074.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 927 | 957 | - |
| 2 | g4074.t1 | PANTHER | PTHR11347:SF209 | HIGH AFFINITY CGMP-SPECIFIC 3’,5’-CYCLIC PHOSPHODIESTERASE 9A | 120 | 596 | 2.1E-257 |
| 3 | g4074.t1 | PANTHER | PTHR11347 | CYCLIC NUCLEOTIDE PHOSPHODIESTERASE | 120 | 596 | 2.1E-257 |
| 6 | g4074.t1 | PRINTS | PR00387 | 3’5’-cyclic nucleotide phosphodiesterase signature | 306 | 319 | 2.3E-17 |
| 4 | g4074.t1 | PRINTS | PR00387 | 3’5’-cyclic nucleotide phosphodiesterase signature | 337 | 350 | 2.3E-17 |
| 5 | g4074.t1 | PRINTS | PR00387 | 3’5’-cyclic nucleotide phosphodiesterase signature | 351 | 366 | 2.3E-17 |
| 8 | g4074.t1 | PRINTS | PR00387 | 3’5’-cyclic nucleotide phosphodiesterase signature | 378 | 394 | 2.3E-17 |
| 9 | g4074.t1 | PRINTS | PR00387 | 3’5’-cyclic nucleotide phosphodiesterase signature | 457 | 470 | 2.3E-17 |
| 7 | g4074.t1 | PRINTS | PR00387 | 3’5’-cyclic nucleotide phosphodiesterase signature | 474 | 490 | 2.3E-17 |
| 1 | g4074.t1 | Pfam | PF00233 | 3’5’-cyclic nucleotide phosphodiesterase | 310 | 537 | 6.2E-79 |
| 15 | g4074.t1 | ProSitePatterns | PS00126 | 3’5’-cyclic nucleotide phosphodiesterase domain signature. | 351 | 362 | - |
| 23 | g4074.t1 | ProSiteProfiles | PS51845 | 3’5’-cyclic nucleotide phosphodiesterase domain profile. | 235 | 556 | 117.877 |
| 14 | g4074.t1 | SMART | SM00471 | hd_13 | 308 | 475 | 8.2E-7 |
| 10 | g4074.t1 | SUPERFAMILY | SSF109604 | HD-domain/PDEase-like | 256 | 563 | 5.3E-111 |
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 K13761 (high affinity cGMP-specific 3’,5’-cyclic phosphodiesterase 9)
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.
