General information for g10225.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 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.t1 | TTS | g10225.t1 | 8347173 | 8347173 |
| chr_1 | g10225 | g10225.t1 | isoform | g10225.t1 | 8347494 | 8349053 |
| chr_1 | g10225 | g10225.t1 | exon | g10225.t1.exon1 | 8347494 | 8348819 |
| chr_1 | g10225 | g10225.t1 | cds | g10225.t1.CDS1 | 8347494 | 8348819 |
| chr_1 | g10225 | g10225.t1 | exon | g10225.t1.exon2 | 8348961 | 8349053 |
| chr_1 | g10225 | g10225.t1 | cds | g10225.t1.CDS2 | 8348961 | 8349053 |
| chr_1 | g10225 | g10225.t1 | TSS | g10225.t1 | 8349126 | 8349126 |
Sequences
>g10225.t1 Gene=g10225 Length=1419
ATGTCCCAAGTACCATCACAGCGCTCTAAAACTCCTTTCAAAGTTCCTGTGCATATTTTG
GACGAGCTATGTTCTAAGTTTTTAATAAATTTGCCTGATGCTGAAAAAAATGACGTCATA
AGATTATTCTTTCAAATTGAACTAGCTCATTGGTTCTTTTTGGATTTCTACTGCACACAA
GAAGCAAATTCAATTTACGTTTGTGGAATCAAGCAGTTTGCGTTCTACATTTTCGAGCAT
ATTCCATTTTTCAATCACCTTTTACCCGATCTCACTTCAATTCTTGAGAAATGGAGATGT
TATAAAATGTCTGTTCCGACTTATGGTGCCATATTATTGACACCTGATATGAATCAATGT
CTTTTAGTGCAATCGTATTTCGCAAAAAATTCGTGGGGTTTCCCAAAAGGAAAAGTTAAT
GAAAATGAAGATCCTGTCAAGTGTGCTATTCGAGAGGTATATGAAGAGACTGGGTTTGAT
TGCAGTCAATTAATAAACGAAAATGACTTCATAGAAGGACAAACTAGCAATTATCAGTAT
ACACGTTTATATATCGTTAGGAATGTTCCTGTCGATACCAAATTTTGTCCTCGCACGAGA
AATGAAATCAAGGAATGTCAATGGTTTACTATCGCTGAATTACCAAACTGTCGTAATGAT
GATGGTTACTTAATGGATCAGAAAAAAATACGTGCAAATTCTTTCTACATGATTCTTCCA
TTCATTTCAAAATTAAAACATTGGATTGCTGCAGAGCGTTTAGCGAAAGTTATTGGTAAT
AAGAAGAAACAGAAGCAGCAATCTAAAGGTGGAAAACATAGTAATAGCAACACAAAAAAG
AACTTGAATAGCAAAGCGCCGTTAATGAATAATCAACAATCCAAATCACCCTATTTTCAC
AATAATGAAGCAGGTGATCATACAAGTAGTAGTAATAATAATCATCATAATCGTAATGCA
AGAGCTCGTCACAAGTCAGCAGGAGACGTTTTGGAAATTAACAGTCCAATAACAAACGGG
ACATTTTACAATGATCATTTGAAACAACAAAATAATACTTCGACACCAATTAATATTGTA
AATCATGATGGATTTTTTATATCTGGATCATCATCTGCATTTCGTGCTACAAATAATATT
TCAAACAGTTTTAAAAAGAAACTACATCTCCAAAAGAGCAATAGTAGCGGAAAAGCAATC
AATGGTGGCAGCTCTCACATTCAAAATTCTCATTATCAACATCCACAACAAGAACACATC
AAACGACGACTCTTTTCCGAGACTAAAGAAAATTATCAACCACAAAGTGTTGTCACATCG
ACAATTCCAGTCCCAGTTAAGCCATTTTCAATGGAATTACCAGAAAGTTGGAAAAATTTC
AAATTTGATCATCAAAAGATTTTTAATTCCATTTTATAA
>g10225.t1 Gene=g10225 Length=472
MSQVPSQRSKTPFKVPVHILDELCSKFLINLPDAEKNDVIRLFFQIELAHWFFLDFYCTQ
EANSIYVCGIKQFAFYIFEHIPFFNHLLPDLTSILEKWRCYKMSVPTYGAILLTPDMNQC
LLVQSYFAKNSWGFPKGKVNENEDPVKCAIREVYEETGFDCSQLINENDFIEGQTSNYQY
TRLYIVRNVPVDTKFCPRTRNEIKECQWFTIAELPNCRNDDGYLMDQKKIRANSFYMILP
FISKLKHWIAAERLAKVIGNKKKQKQQSKGGKHSNSNTKKNLNSKAPLMNNQQSKSPYFH
NNEAGDHTSSSNNNHHNRNARARHKSAGDVLEINSPITNGTFYNDHLKQQNNTSTPINIV
NHDGFFISGSSSAFRATNNISNSFKKKLHLQKSNSSGKAINGGSSHIQNSHYQHPQQEHI
KRRLFSETKENYQPQSVVTSTIPVPVKPFSMELPESWKNFKFDHQKIFNSIL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g10225.t1 | CDD | cd03672 | Dcp2p | 105 | 256 | 5.33589E-66 |
| 7 | g10225.t1 | Gene3D | G3DSA:1.10.10.1050 | - | 19 | 103 | 3.4E-87 |
| 8 | g10225.t1 | Gene3D | G3DSA:3.90.79.10 | Nucleoside Triphosphate Pyrophosphohydrolase | 104 | 250 | 3.4E-87 |
| 14 | g10225.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 260 | 291 | - |
| 13 | g10225.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 270 | 291 | - |
| 12 | g10225.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 305 | 329 | - |
| 3 | g10225.t1 | PANTHER | PTHR23114:SF17 | M7GPPPN-MRNA HYDROLASE | 12 | 469 | 2.3E-100 |
| 4 | g10225.t1 | PANTHER | PTHR23114 | M7GPPPN-MRNA HYDROLASE | 12 | 469 | 2.3E-100 |
| 1 | g10225.t1 | Pfam | PF05026 | Dcp2, box A domain | 19 | 101 | 2.3E-23 |
| 2 | g10225.t1 | Pfam | PF00293 | NUDIX domain | 108 | 215 | 1.2E-17 |
| 10 | g10225.t1 | ProSitePatterns | PS00893 | Nudix box signature. | 137 | 158 | - |
| 15 | g10225.t1 | ProSiteProfiles | PS51462 | Nudix hydrolase domain profile. | 103 | 239 | 15.099 |
| 11 | g10225.t1 | SMART | SM01125 | DCP2_2 | 17 | 102 | 1.1E-27 |
| 5 | g10225.t1 | SUPERFAMILY | SSF140586 | Dcp2 domain-like | 16 | 103 | 2.09E-24 |
| 6 | g10225.t1 | SUPERFAMILY | SSF55811 | Nudix | 94 | 230 | 4.74E-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:0003723 | RNA binding | MF |
| 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 |
| GO:0030145 | manganese ion binding | MF |
KEGG
Orthology
- This transcript has been annotated with K12613 (mRNA-decapping enzyme subunit 2)
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.
