General information for g10225.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative m7GpppN-mRNA hydrolase.
Parent gene
- The parent gene g10225 is located on chr_1: 8347494..8349053 (- 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 | g10225 | g10225.t4 | TTS | g10225.t4 | 8347173 | 8347173 |
| chr_1 | g10225 | g10225.t4 | isoform | g10225.t4 | 8347494 | 8348819 |
| chr_1 | g10225 | g10225.t4 | exon | g10225.t4.exon1 | 8347494 | 8348819 |
| chr_1 | g10225 | g10225.t4 | cds | g10225.t4.CDS1 | 8347494 | 8348606 |
| chr_1 | g10225 | g10225.t4 | TSS | g10225.t4 | 8349126 | 8349126 |
Sequences
>g10225.t4 Gene=g10225 Length=1326
CCTGATGCTGAAAAAAATGACGTCATAAGATTATTCTTTCAAATTGAACTAGCTCATTGG
TTCTTTTTGGATTTCTACTGCACACAAGAAGCAAATTCAATTTACGTTTGTGGAATCAAG
CAGTTTGCGTTCTACATTTTCGAGCATATTCCATTTTTCAATCACCTTTTACCCGATCTC
ACTTCAATTCTTGAGAAATGGAGATGTTATAAAATGTCTGTTCCGACTTATGGTGCCATA
TTATTGACACCTGATATGAATCAATGTCTTTTAGTGCAATCGTATTTCGCAAAAAATTCG
TGGGGTTTCCCAAAAGGAAAAGTTAATGAAAATGAAGATCCTGTCAAGTGTGCTATTCGA
GAGGTATATGAAGAGACTGGGTTTGATTGCAGTCAATTAATAAACGAAAATGACTTCATA
GAAGGACAAACTAGCAATTATCAGTATACACGTTTATATATCGTTAGGAATGTTCCTGTC
GATACCAAATTTTGTCCTCGCACGAGAAATGAAATCAAGGAATGTCAATGGTTTACTATC
GCTGAATTACCAAACTGTCGTAATGATGATGGTTACTTAATGGATCAGAAAAAAATACGT
GCAAATTCTTTCTACATGATTCTTCCATTCATTTCAAAATTAAAACATTGGATTGCTGCA
GAGCGTTTAGCGAAAGTTATTGGTAATAAGAAGAAACAGAAGCAGCAATCTAAAGGTGGA
AAACATAGTAATAGCAACACAAAAAAGAACTTGAATAGCAAAGCGCCGTTAATGAATAAT
CAACAATCCAAATCACCCTATTTTCACAATAATGAAGCAGGTGATCATACAAGTAGTAGT
AATAATAATCATCATAATCGTAATGCAAGAGCTCGTCACAAGTCAGCAGGAGACGTTTTG
GAAATTAACAGTCCAATAACAAACGGGACATTTTACAATGATCATTTGAAACAACAAAAT
AATACTTCGACACCAATTAATATTGTAAATCATGATGGATTTTTTATATCTGGATCATCA
TCTGCATTTCGTGCTACAAATAATATTTCAAACAGTTTTAAAAAGAAACTACATCTCCAA
AAGAGCAATAGTAGCGGAAAAGCAATCAATGGTGGCAGCTCTCACATTCAAAATTCTCAT
TATCAACATCCACAACAAGAACACATCAAACGACGACTCTTTTCCGAGACTAAAGAAAAT
TATCAACCACAAAGTGTTGTCACATCGACAATTCCAGTCCCAGTTAAGCCATTTTCAATG
GAATTACCAGAAAGTTGGAAAAATTTCAAATTTGATCATCAAAAGATTTTTAATTCCATT
TTATAA
>g10225.t4 Gene=g10225 Length=370
MSVPTYGAILLTPDMNQCLLVQSYFAKNSWGFPKGKVNENEDPVKCAIREVYEETGFDCS
QLINENDFIEGQTSNYQYTRLYIVRNVPVDTKFCPRTRNEIKECQWFTIAELPNCRNDDG
YLMDQKKIRANSFYMILPFISKLKHWIAAERLAKVIGNKKKQKQQSKGGKHSNSNTKKNL
NSKAPLMNNQQSKSPYFHNNEAGDHTSSSNNNHHNRNARARHKSAGDVLEINSPITNGTF
YNDHLKQQNNTSTPINIVNHDGFFISGSSSAFRATNNISNSFKKKLHLQKSNSSGKAING
GSSHIQNSHYQHPQQEHIKRRLFSETKENYQPQSVVTSTIPVPVKPFSMELPESWKNFKF
DHQKIFNSIL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g10225.t4 | CDD | cd03672 | Dcp2p | 3 | 154 | 7.48615E-68 |
| 5 | g10225.t4 | Gene3D | G3DSA:3.90.79.10 | Nucleoside Triphosphate Pyrophosphohydrolase | 2 | 170 | 4.9E-49 |
| 10 | g10225.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 158 | 189 | - |
| 8 | g10225.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 168 | 189 | - |
| 9 | g10225.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 203 | 227 | - |
| 2 | g10225.t4 | PANTHER | PTHR23114:SF17 | M7GPPPN-MRNA HYDROLASE | 1 | 367 | 8.7E-66 |
| 3 | g10225.t4 | PANTHER | PTHR23114 | M7GPPPN-MRNA HYDROLASE | 1 | 367 | 8.7E-66 |
| 1 | g10225.t4 | Pfam | PF00293 | NUDIX domain | 6 | 113 | 7.4E-18 |
| 7 | g10225.t4 | ProSitePatterns | PS00893 | Nudix box signature. | 35 | 56 | - |
| 11 | g10225.t4 | ProSiteProfiles | PS51462 | Nudix hydrolase domain profile. | 1 | 137 | 15.099 |
| 4 | g10225.t4 | SUPERFAMILY | SSF55811 | Nudix | 4 | 138 | 4.6E-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:0050072 | m7G(5’)pppN diphosphatase activity | MF |
| GO:0016787 | hydrolase activity | MF |
| GO:0000184 | nuclear-transcribed mRNA catabolic process, nonsense-mediated decay | BP |
| GO:0000290 | deadenylation-dependent decapping of nuclear-transcribed mRNA | BP |
KEGG
Orthology
This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
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.
