General information for g2427.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as cGMP-specific 3’,5’-cyclic phosphodiesterase.
Parent gene
- The parent gene g2427 is located on chr_3: 17908930..17918755 (- 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 | g2427 | g2427.t1 | TTS | g2427.t1 | 17908542 | 17908542 |
| chr_3 | g2427 | g2427.t1 | isoform | g2427.t1 | 17908930 | 17918755 |
| chr_3 | g2427 | g2427.t1 | exon | g2427.t1.exon1 | 17908930 | 17909312 |
| chr_3 | g2427 | g2427.t1 | cds | g2427.t1.CDS1 | 17908930 | 17909312 |
| chr_3 | g2427 | g2427.t1 | exon | g2427.t1.exon2 | 17909485 | 17909833 |
| chr_3 | g2427 | g2427.t1 | cds | g2427.t1.CDS2 | 17909485 | 17909833 |
| chr_3 | g2427 | g2427.t1 | exon | g2427.t1.exon3 | 17909915 | 17909946 |
| chr_3 | g2427 | g2427.t1 | cds | g2427.t1.CDS3 | 17909915 | 17909946 |
| chr_3 | g2427 | g2427.t1 | exon | g2427.t1.exon4 | 17910773 | 17910926 |
| chr_3 | g2427 | g2427.t1 | cds | g2427.t1.CDS4 | 17910773 | 17910926 |
| chr_3 | g2427 | g2427.t1 | exon | g2427.t1.exon5 | 17911024 | 17911179 |
| chr_3 | g2427 | g2427.t1 | cds | g2427.t1.CDS5 | 17911024 | 17911179 |
| chr_3 | g2427 | g2427.t1 | exon | g2427.t1.exon6 | 17911541 | 17911655 |
| chr_3 | g2427 | g2427.t1 | cds | g2427.t1.CDS6 | 17911541 | 17911655 |
| chr_3 | g2427 | g2427.t1 | exon | g2427.t1.exon7 | 17911773 | 17911825 |
| chr_3 | g2427 | g2427.t1 | cds | g2427.t1.CDS7 | 17911773 | 17911825 |
| chr_3 | g2427 | g2427.t1 | exon | g2427.t1.exon8 | 17911982 | 17912073 |
| chr_3 | g2427 | g2427.t1 | cds | g2427.t1.CDS8 | 17911982 | 17912073 |
| chr_3 | g2427 | g2427.t1 | exon | g2427.t1.exon9 | 17912206 | 17912351 |
| chr_3 | g2427 | g2427.t1 | cds | g2427.t1.CDS9 | 17912206 | 17912351 |
| chr_3 | g2427 | g2427.t1 | exon | g2427.t1.exon10 | 17912442 | 17912450 |
| chr_3 | g2427 | g2427.t1 | cds | g2427.t1.CDS10 | 17912442 | 17912450 |
| chr_3 | g2427 | g2427.t1 | exon | g2427.t1.exon11 | 17912628 | 17912974 |
| chr_3 | g2427 | g2427.t1 | cds | g2427.t1.CDS11 | 17912628 | 17912974 |
| chr_3 | g2427 | g2427.t1 | exon | g2427.t1.exon12 | 17913124 | 17913165 |
| chr_3 | g2427 | g2427.t1 | cds | g2427.t1.CDS12 | 17913124 | 17913165 |
| chr_3 | g2427 | g2427.t1 | exon | g2427.t1.exon13 | 17914207 | 17914290 |
| chr_3 | g2427 | g2427.t1 | cds | g2427.t1.CDS13 | 17914207 | 17914290 |
| chr_3 | g2427 | g2427.t1 | exon | g2427.t1.exon14 | 17914491 | 17914690 |
| chr_3 | g2427 | g2427.t1 | cds | g2427.t1.CDS14 | 17914491 | 17914690 |
| chr_3 | g2427 | g2427.t1 | exon | g2427.t1.exon15 | 17914742 | 17914807 |
| chr_3 | g2427 | g2427.t1 | cds | g2427.t1.CDS15 | 17914742 | 17914807 |
| chr_3 | g2427 | g2427.t1 | exon | g2427.t1.exon16 | 17914938 | 17915183 |
| chr_3 | g2427 | g2427.t1 | cds | g2427.t1.CDS16 | 17914938 | 17915183 |
| chr_3 | g2427 | g2427.t1 | exon | g2427.t1.exon17 | 17916759 | 17917005 |
| chr_3 | g2427 | g2427.t1 | cds | g2427.t1.CDS17 | 17916759 | 17917005 |
| chr_3 | g2427 | g2427.t1 | exon | g2427.t1.exon18 | 17918456 | 17918755 |
| chr_3 | g2427 | g2427.t1 | cds | g2427.t1.CDS18 | 17918456 | 17918755 |
| chr_3 | g2427 | g2427.t1 | TSS | g2427.t1 | NA | NA |
Sequences
>g2427.t1 Gene=g2427 Length=3021
ATGGCCAATTTAAATAACTCGTCGTCAGCCACATTAGCAAGTGCAAGTCAGGATTCAAAT
ACAACGACAATTAATATGACGGCGAGTAGTAGTACAGACGATTTGCAGCGTGTCAATGAA
TTCTTTGAGGCAAATTCGAATGCCATTGAGCGATGGCTCAGAGACAAAGCTTCCGATGAC
GTGCTCAGTCGTCTGCATAGTATAATCAAGAGCAAAGAACGAGTTGGTGACAGCAGAGAG
CATCACAGGTCTTCTGTCACATCCGAACTCTATCAACAATGGCTGTCATCGTCAATGAAG
CAAAGCACATCTTCTAGTTCAACAGAAACACGCAAAAGCCTAGCACAATTAGATGAAGGA
GAGTTATTTATGGAACTTATAAAGGATATAGCAAATGAATTAGATATTGATGTGCTCTGT
CACAAGATACTTGTAAATGTCGAATTATTAACGCATGCCGACAGGGGATCACTCTTTCTT
GTCAAAGGCAACGCAACGCAAATGCGTTATCTTCATGCTAAACTCTTTGATGTCTGTCAA
GATACTGCTCTTGATGATGCAATTAAACGTGCAAAAGCGGAAGAGATTGTCATTCCATTT
GGCGTTGGAATAGCGGGTCATGTAGCAGAGACAAAAGAAATGGTAAACATAAAAGATGCA
TATAACGACCCACGTTTCAATTGTGAAATCGATCAAAAGACTGGTTATAAAACAAACAAT
ATTCTCTCATTACCAATCTGTAACTATGAAGGCGAAGTTATAGGTGTTGCTCAAATCATA
AATAAGACAAATGGTCAGGATGAGTTCACAGAACGTGATGTTGAGGTGTTTAAGCGCTAT
CTTACATTTTGTGGAATAGGTATACAGAATGCACAGCTTTTTGAGAACAGTGTACTTGAG
TATCGACGGAATCAAATTTTGTTGAACTTGGCGCGGAGCATCTTCGAAGAGCAAAACAAT
CTCGAATGCCTCGTGACAAAAATAATGAGGGAGGCAAGAGACTTATTGAAATGTGAACGC
TGTGCCGTGTTTCTAGTTGATTTGGAATGCTGTGAAGCGAGTCATTTGGAGCGAATGCTT
AAATCAACTAATCAAATTGATTATGAGGAAAGCAATAATTCCGACAATGATGCATCAAAA
AAGGACATTTACGTTCCACCTAAATTTACCAGGATATTCGAAATGGGAAGTGATGATAGT
AGTAACACAAGTGGTCGTTCATCAGTTGAGGATATCAATAGCTCTTATTTGGCTCAAATC
GCTCAACATGTTGCAAAAACTGGAGAAATTCTCAATATTAATGATACCTTAGATTGGCTT
AAAAATCATCCAGAATATCAAATAAATAGCATTTGTGAAATTCCACAAGAGTCAAAATGT
ATCCTCTGTATGCCCATAAAAAATAGCCAAAAAAATGTCATAGGTGTGCTTGTTTATGTA
CACGCGAACGGCGTTCAATTTACAAATTGCGAAATTTCCATTTTCGAAGCGTTTGCGATA
TTCTGTGGCTTGGGAATTCACAATACAACAATGTATGAAAGCGCCTGCAAGCTTATGGCA
AAGCAAAAAGTTGCTCTCGAATGTCTCTCATATCATGCAACTGCGCCAACAGAATTAACG
ATGAAATTGGCAAACGATCCAATCAAGAGTGCTGAAGAATATAAGCTATATGATTTTAAA
TTCATAGATTTCGAATTGTCGGAAGAGGAAACGTGCAGGGCAACGATCAGGATGTTTGTT
GATTTTAACCTAGTCAGCCAATTCAACATACCGTATGATGTCCTGTGTCGATGGATATTA
AGCGTGAAAAAGAATTATCGTCCAGTAAAATATCATAATTGGAGGCACGCGCTTAATGTG
GCACAGACAATGTTCGCAATGATGAAGACAGGCAAAATGGAGCGTTTTATGAAGGATCTT
GAGATTCTTGGATTGCTCGTCGCTTGTCTCTGTCATGATCTCGACCACATGGGTACAAAT
AATGCATTTCAAGTTAAAACTAATTCGCCTCTTGGCATACTCTATACGACTAGCACAATG
GAACATCATCATTTCGATCAATGCGTTATGATTCTCAATTCGGAGGGTAACAATATTTTT
CAAGCACTCTCGCCAGAGGACTATCGTTATGTTATGAATGTTGTAGAGAAAGCCATTCTC
TCAACCGATTTAGCAATGTATTTCAAGAAGCGTGACAAATTTCTGGATCTGATTGATAAT
GGTGAATTTGATTGGCAGAGCGACGAGAAAAAAGAGCTACTATGCGGAATGATGATGACA
GCTTGCGATGTTAGTGCGATAGCGAAGCCTTGGGAGGTTCAACATCGAATTGCCAAATTG
GTCGCCGATGAATTCTTCGATCAGGGTGATTTGGAGAAGCTTCAACTCAACACGCAACCT
ATTGCAATGATGGATCGCGAGAGAAAAGACGAGTTACCAAAAATGCAAGTTGGCTTTATT
GACGTCATTTGTATGCCACTCTATAAAGTTTTATCAGAGACATTTCCTTGGATCTCACCA
CTTTATGAAGGCACAATGGAAAACCGCAAACATTGGCAAGACCTGGCCGAGAAAGTTGAG
ATGGGGCTGACGTGGATTGATCACGATACAATAGAGCAGCCAATTGAAGAGCTTGCTGCT
AATGCTAATGAAATAGGCGATATAGAGTTTACAGTATGCGAGCTTAATTGTAGCAATGCT
CAACAGAATGACGAGCAGAGTTCACCAGTGCACGAAAGAAAACCTCGATTTAGTAGCTTC
AAGAAGAGTGGCGCTCTATCGAAGGCAGTTCGCAGTAAATTAAACTTATCAAAATCATCG
ACGCAATCAACTGAAAAACAAAACAGTTGCCCTGAAAGCAGTTCCTTTGATCATGATAAT
CGACAAGAGAGTATAAGTGCAGAAAATGGAAACAGTAGTGCAAAAAGCGATTCAATACAA
GAGCAATCAAGTACGGGCTCAAATAAGTCACATCCTACAAAAGTCACCAAGAAAAAGTCA
AAGCTTTGTTTGTTATTATGA
>g2427.t1 Gene=g2427 Length=1006
MANLNNSSSATLASASQDSNTTTINMTASSSTDDLQRVNEFFEANSNAIERWLRDKASDD
VLSRLHSIIKSKERVGDSREHHRSSVTSELYQQWLSSSMKQSTSSSSTETRKSLAQLDEG
ELFMELIKDIANELDIDVLCHKILVNVELLTHADRGSLFLVKGNATQMRYLHAKLFDVCQ
DTALDDAIKRAKAEEIVIPFGVGIAGHVAETKEMVNIKDAYNDPRFNCEIDQKTGYKTNN
ILSLPICNYEGEVIGVAQIINKTNGQDEFTERDVEVFKRYLTFCGIGIQNAQLFENSVLE
YRRNQILLNLARSIFEEQNNLECLVTKIMREARDLLKCERCAVFLVDLECCEASHLERML
KSTNQIDYEESNNSDNDASKKDIYVPPKFTRIFEMGSDDSSNTSGRSSVEDINSSYLAQI
AQHVAKTGEILNINDTLDWLKNHPEYQINSICEIPQESKCILCMPIKNSQKNVIGVLVYV
HANGVQFTNCEISIFEAFAIFCGLGIHNTTMYESACKLMAKQKVALECLSYHATAPTELT
MKLANDPIKSAEEYKLYDFKFIDFELSEEETCRATIRMFVDFNLVSQFNIPYDVLCRWIL
SVKKNYRPVKYHNWRHALNVAQTMFAMMKTGKMERFMKDLEILGLLVACLCHDLDHMGTN
NAFQVKTNSPLGILYTTSTMEHHHFDQCVMILNSEGNNIFQALSPEDYRYVMNVVEKAIL
STDLAMYFKKRDKFLDLIDNGEFDWQSDEKKELLCGMMMTACDVSAIAKPWEVQHRIAKL
VADEFFDQGDLEKLQLNTQPIAMMDRERKDELPKMQVGFIDVICMPLYKVLSETFPWISP
LYEGTMENRKHWQDLAEKVEMGLTWIDHDTIEQPIEELAANANEIGDIEFTVCELNCSNA
QQNDEQSSPVHERKPRFSSFKKSGALSKAVRSKLNLSKSSTQSTEKQNSCPESSSFDHDN
RQESISAENGNSSAKSDSIQEQSSTGSNKSHPTKVTKKKSKLCLLL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 17 | g2427.t1 | CDD | cd00077 | HDc | 611 | 786 | 2.28859E-13 |
| 16 | g2427.t1 | Gene3D | G3DSA:3.30.450.40 | - | 104 | 317 | 4.9E-61 |
| 15 | g2427.t1 | Gene3D | G3DSA:1.10.1300.10 | Catalytic domain of cyclic nucleotide phosphodiesterase 4b2b | 533 | 859 | 3.0E-118 |
| 23 | g2427.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 20 | - |
| 24 | g2427.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 901 | 1006 | - |
| 25 | g2427.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 930 | 955 | - |
| 22 | g2427.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 965 | 991 | - |
| 4 | g2427.t1 | PANTHER | PTHR11347 | CYCLIC NUCLEOTIDE PHOSPHODIESTERASE | 92 | 862 | 4.8E-238 |
| 5 | g2427.t1 | PANTHER | PTHR11347:SF20 | PHOSPHODIESTERASE | 92 | 862 | 4.8E-238 |
| 9 | g2427.t1 | PRINTS | PR00387 | 3’5’-cyclic nucleotide phosphodiesterase signature | 607 | 620 | 1.8E-29 |
| 8 | g2427.t1 | PRINTS | PR00387 | 3’5’-cyclic nucleotide phosphodiesterase signature | 638 | 651 | 1.8E-29 |
| 7 | g2427.t1 | PRINTS | PR00387 | 3’5’-cyclic nucleotide phosphodiesterase signature | 652 | 667 | 1.8E-29 |
| 11 | g2427.t1 | PRINTS | PR00387 | 3’5’-cyclic nucleotide phosphodiesterase signature | 678 | 694 | 1.8E-29 |
| 6 | g2427.t1 | PRINTS | PR00387 | 3’5’-cyclic nucleotide phosphodiesterase signature | 759 | 772 | 1.8E-29 |
| 10 | g2427.t1 | PRINTS | PR00387 | 3’5’-cyclic nucleotide phosphodiesterase signature | 776 | 792 | 1.8E-29 |
| 2 | g2427.t1 | Pfam | PF01590 | GAF domain | 135 | 284 | 1.1E-15 |
| 1 | g2427.t1 | Pfam | PF01590 | GAF domain | 320 | 504 | 6.3E-14 |
| 3 | g2427.t1 | Pfam | PF00233 | 3’5’-cyclic nucleotide phosphodiesterase | 611 | 842 | 7.4E-82 |
| 21 | g2427.t1 | ProSitePatterns | PS00126 | 3’5’-cyclic nucleotide phosphodiesterase domain signature. | 652 | 663 | - |
| 26 | g2427.t1 | ProSiteProfiles | PS51845 | 3’5’-cyclic nucleotide phosphodiesterase domain profile. | 536 | 859 | 146.319 |
| 18 | g2427.t1 | SMART | SM00065 | gaf_1 | 135 | 298 | 3.8E-24 |
| 19 | g2427.t1 | SMART | SM00065 | gaf_1 | 320 | 516 | 5.3E-11 |
| 20 | g2427.t1 | SMART | SM00471 | hd_13 | 609 | 777 | 6.5E-7 |
| 14 | g2427.t1 | SUPERFAMILY | SSF55781 | GAF domain-like | 116 | 317 | 1.77E-43 |
| 13 | g2427.t1 | SUPERFAMILY | SSF55781 | GAF domain-like | 300 | 533 | 2.62E-28 |
| 12 | g2427.t1 | SUPERFAMILY | SSF109604 | HD-domain/PDEase-like | 551 | 869 | 1.85E-119 |
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 K13763 (cGMP-specific 3’,5’-cyclic phosphodiesterase, invertebrate)
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