General information for g6634.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as cGMP-dependent 3’,5’-cyclic phosphodiesterase.
Parent gene
- The parent gene g6634 is located on chr_2: 17888213..17890103 (+ 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_2 | g6634 | g6634.t1 | isoform | g6634.t1 | 17887634 | 17890103 |
| chr_2 | g6634 | g6634.t1 | exon | g6634.t1.exon1 | 17887634 | 17887778 |
| chr_2 | g6634 | g6634.t1 | cds | g6634.t1.CDS1 | 17887634 | 17887778 |
| chr_2 | g6634 | g6634.t1 | exon | g6634.t1.exon2 | 17888308 | 17888362 |
| chr_2 | g6634 | g6634.t1 | cds | g6634.t1.CDS2 | 17888308 | 17888362 |
| chr_2 | g6634 | g6634.t1 | exon | g6634.t1.exon3 | 17888426 | 17889432 |
| chr_2 | g6634 | g6634.t1 | cds | g6634.t1.CDS3 | 17888426 | 17889432 |
| chr_2 | g6634 | g6634.t1 | exon | g6634.t1.exon4 | 17889490 | 17890103 |
| chr_2 | g6634 | g6634.t1 | cds | g6634.t1.CDS4 | 17889490 | 17890103 |
| chr_2 | g6634 | g6634.t1 | TTS | g6634.t1 | 17890406 | 17890406 |
| chr_2 | g6634 | g6634.t1 | TSS | g6634.t1 | NA | NA |
Sequences
>g6634.t1 Gene=g6634 Length=1821
ATGCGTAAACTTACGAATATAAAAACGATTCCTATAATTGATAGAGCTTTTCTGCCTTTT
CAAATAATAAAGTACACCGGCAATATCGACAAAAATTATTTTTTGAATCAAGGAAAAAAT
TCAAATTTAAGATTCCCGTTAAAGTCTGGTGACGATACGCATAAAAAATTATATGAATTT
TACATTCGTCATACTTTTCGTTATGTACTTGGATACTTGCTAACTGCAATTGAACTGTAT
GAAGAAAAAAGAGTACGACTCCAATGTCAAAATTTACTTCAAGTTGCTCGTCGTTTATTA
AGTAAAATTGGTGATTTAGGTCAGCTTCTTCGTGGTGTTATGGCAGAAGCACGAGAACTA
GCAAAAGCTGAAAGATGCTCACTTTTTCTAATTGATAAAGATACTGGAGAATTGGTATCG
AAAATTTTTGATGGAAATGCAATAACACAACAAACAAAGCAATCAAAAGAGATAAGGATA
AGTGGCAATAAAGGCATTGCTGGGCATGTTGCACTTACTGGGAAATTGTTAAATATTCAT
AACGCATATCAACATCCACTTTTTTACAAAGGAATTGATGAACAAACAGGTTTTAAAACT
AGAAACATTCTTTGTTTTCCCATATGTGATGAGGAATCAAAAGTTATCGGTGTCGCTCAA
TTATGTAATAAACTTGATGGATTTCATTTTGATAAATGTGATGAAGAAACAAGTCGAGCA
TTTTCGGTTTATTGCGGAATTACCATCATGCATAGTCTTGTTCATAAACGTGTGCAAAAA
GCTGAAGCACGATATAAGTTATCACAAGAGCTTTTACTTTACCATATGAAAGTTCCAGAA
CCTGATGTTATCAATTGCCTTAATCATGAACATTTAGACTCTGTTATTGAAAAGTATCCA
GAATTTTCAAGCTTTAGTTTTTGCCCACGTGACGTCGACGATCATACTTCTATGCTTCTT
AGTCTACATATGTTTATTGATTTGAATTTTATAAAGGAATTCAAAATACCTGAAGATAAA
CTAGCTCGTTTCCTAATGCTTGTACAAAAAGGTTATCGAATGGTTCCATATCATAATTGG
CACCATGCATTCAGTGTTACACATTTTGCCTATGCATGTATAAAAAATCTAAAACTAATA
GATCGCGGAATTATAACAAAACTTCAAGGACTTTCCTTTCTTATAGCTTGCCTTTGTCAT
GATTTAGATCATCGTGGATTTAATAATTCGTATATGACACAAACAACAAGTTTATTAGCA
AGGCTTTATAGTTCAGAAGGGTCTATCAATGAGCGTCATCATTTGTCTCAAGCAATTTGT
ATTCTTAACGATTCAGGTAGCAAAATTTTAGATTCATTAAATACAGAACAATTCATGGAA
TCAATCGATTATTTGAGAGAACTAATTCTTGCAACTGATCTTGCTAATCATTTCCGAATT
TTCAAAGATTTAAAAAATCTGACAACTGACAACATAAAAGATACACCAAGATTATTGTTG
TCACTGTTGATTACTTGCTCGGATCTAAATGATCAAATCAAAACTTGGTCTACAGTTTAT
CGTGTTGCTGAATTAGTATATACAGAATTTTTCACACAAGGAGATTTGGAAAAACAAATG
GGCATGTCGCCAAATTTAATGTTTGACAGGAAAAAAGCAAACGTGCCATCACTTCAAATT
GATTTTTTGGATACCGTTGTAAAGCCAACCTTTGAGATTTTCGTACAAATATTTCCTGAA
ACATTGCAATTTCTTGATACAATTAATGAAAATCGACAACATTGGATTGAAATTAAGGAA
AATGAGAATAAAAATTTGTAA
>g6634.t1 Gene=g6634 Length=606
MRKLTNIKTIPIIDRAFLPFQIIKYTGNIDKNYFLNQGKNSNLRFPLKSGDDTHKKLYEF
YIRHTFRYVLGYLLTAIELYEEKRVRLQCQNLLQVARRLLSKIGDLGQLLRGVMAEAREL
AKAERCSLFLIDKDTGELVSKIFDGNAITQQTKQSKEIRISGNKGIAGHVALTGKLLNIH
NAYQHPLFYKGIDEQTGFKTRNILCFPICDEESKVIGVAQLCNKLDGFHFDKCDEETSRA
FSVYCGITIMHSLVHKRVQKAEARYKLSQELLLYHMKVPEPDVINCLNHEHLDSVIEKYP
EFSSFSFCPRDVDDHTSMLLSLHMFIDLNFIKEFKIPEDKLARFLMLVQKGYRMVPYHNW
HHAFSVTHFAYACIKNLKLIDRGIITKLQGLSFLIACLCHDLDHRGFNNSYMTQTTSLLA
RLYSSEGSINERHHLSQAICILNDSGSKILDSLNTEQFMESIDYLRELILATDLANHFRI
FKDLKNLTTDNIKDTPRLLLSLLITCSDLNDQIKTWSTVYRVAELVYTEFFTQGDLEKQM
GMSPNLMFDRKKANVPSLQIDFLDTVVKPTFEIFVQIFPETLQFLDTINENRQHWIEIKE
NENKNL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 14 | g6634.t1 | CDD | cd00077 | HDc | 357 | 531 | 1.04561E-10 |
| 13 | g6634.t1 | Gene3D | G3DSA:3.30.450.40 | - | 79 | 250 | 6.2E-52 |
| 12 | g6634.t1 | Gene3D | G3DSA:1.10.1300.10 | Catalytic domain of cyclic nucleotide phosphodiesterase 4b2b | 280 | 606 | 2.4E-102 |
| 3 | g6634.t1 | PANTHER | PTHR11347:SF102 | PHOSPHODIESTERASE | 81 | 598 | 4.5E-158 |
| 4 | g6634.t1 | PANTHER | PTHR11347 | CYCLIC NUCLEOTIDE PHOSPHODIESTERASE | 81 | 598 | 4.5E-158 |
| 7 | g6634.t1 | PRINTS | PR00387 | 3’5’-cyclic nucleotide phosphodiesterase signature | 353 | 366 | 1.4E-21 |
| 6 | g6634.t1 | PRINTS | PR00387 | 3’5’-cyclic nucleotide phosphodiesterase signature | 400 | 415 | 1.4E-21 |
| 5 | g6634.t1 | PRINTS | PR00387 | 3’5’-cyclic nucleotide phosphodiesterase signature | 428 | 444 | 1.4E-21 |
| 9 | g6634.t1 | PRINTS | PR00387 | 3’5’-cyclic nucleotide phosphodiesterase signature | 504 | 517 | 1.4E-21 |
| 8 | g6634.t1 | PRINTS | PR00387 | 3’5’-cyclic nucleotide phosphodiesterase signature | 521 | 537 | 1.4E-21 |
| 1 | g6634.t1 | Pfam | PF01590 | GAF domain | 105 | 248 | 1.5E-13 |
| 2 | g6634.t1 | Pfam | PF00233 | 3’5’-cyclic nucleotide phosphodiesterase | 357 | 588 | 2.6E-66 |
| 15 | g6634.t1 | ProSitePatterns | PS00126 | 3’5’-cyclic nucleotide phosphodiesterase domain signature. | 400 | 411 | - |
| 18 | g6634.t1 | ProSiteProfiles | PS51845 | 3’5’-cyclic nucleotide phosphodiesterase domain profile. | 276 | 602 | 101.003 |
| 16 | g6634.t1 | SMART | SM00065 | gaf_1 | 105 | 259 | 2.9E-25 |
| 17 | g6634.t1 | SMART | SM00471 | hd_13 | 355 | 522 | 2.2E-7 |
| 11 | g6634.t1 | SUPERFAMILY | SSF55781 | GAF domain-like | 89 | 276 | 1.94E-45 |
| 10 | g6634.t1 | SUPERFAMILY | SSF109604 | HD-domain/PDEase-like | 294 | 604 | 2.93E-97 |
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:0005515 | protein binding | MF |
| GO:0004114 | 3’,5’-cyclic-nucleotide phosphodiesterase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K18283 (cGMP-dependent 3’,5’-cyclic phosphodiesterase)
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.
