General information for g4510.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Ribonucleoside-diphosphate reductase large subunit.
Parent gene
- The parent gene g4510 is located on chr_2: 2947091..2948718 (- 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 | g4510 | g4510.t2 | TTS | g4510.t2 | 2944656 | 2944656 |
| chr_2 | g4510 | g4510.t2 | isoform | g4510.t2 | 2944813 | 2946386 |
| chr_2 | g4510 | g4510.t2 | exon | g4510.t2.exon1 | 2944813 | 2946386 |
| chr_2 | g4510 | g4510.t2 | cds | g4510.t2.CDS1 | 2944813 | 2946309 |
| chr_2 | g4510 | g4510.t2 | TSS | g4510.t2 | NA | NA |
Sequences
>g4510.t2 Gene=g4510 Length=1574
AACCATGGCATGGAGATATCTTTGAATTTTTGGATTTGAAAAAGAATACTGGAAAAGAAG
AAGTAAGAGCAAGAGACATGTTTTATGCTTTATGGATACCTGATTTGTTTATGCGTCGTG
TTGAGAATAATGAAATGTGGAGTTTAATGTGTCCACATAGCTGTCCAGGATTGTACGATA
CGTGGGGAGAAGAATTTGAAAAAATTTATGAGAAATATGAGGCAGAAGGTCGCTATATTC
GTCAAATTAAAGCACAAGATTTATGGTTTGCAATTATTGAGTCTCAAGTTGAAACTGGAA
CACCATATATGCTTTATAAAGATGCATGCAATCGTAAATCAAATCAACAAAATCTTGGAA
CAATTCGATGCTCCAATCTCTGTACAGAAATTGTCGAGTATTCTAGCAAAGATGAAATTG
CTGTTTGTAATTTGGCTTCAATTGCTCTCAACATGTTTGTTAAAGCAAATAGAAAGGAGT
ACGATTTCGATAAATTGAAAGAAGTTGCAAAAATTGCAACGAAAAATTTGAATAAAATCA
TTGATGTCAATTATTATCCGGTTGAAGAGGCTAAACGTTCAAATATGAGACATCGTCCAA
TTGGCATTGGTGTACAAGGATTAGCTGATACTTTTATTATTATGAGAATGCCTTATGAAT
CTCTCGAAGCAAGAAAATTGAATGAGCAAATCTTTGAAACCATTTATTATGGTGCACTTG
AGGCTAGCTGTGAGTTGGCTGAAAAATTAGGACCATATGAAACTTATGAAGGTAGTCCCG
TTTCAAAGGGTATTTTGCAGTATGATATGTGGGATAAGACACCGAGTGATTTATGGGATT
GGGCTGCTTTGAAAGCAAAAATTGCTAAATATGGTGTTAGAAATTCATTGTTGATTGCAC
CGATGCCCACTGCATCGACTGCACAAATTTTGGGTAATAATGAGAGTTTTGAACCATATA
CTAGTAACGTCTATAATCGTCGTGTTTTAAGTGGAGAATTTCAAGTTGTCAATCATCATT
TAATTAAAGACTTAACTGATTGTGGTCTTTGGGATGATGACATGAAAAACAGAATCATTG
CAAATAATGGATCGATTCAACAGATTGAAGAGATTCCAGAGCATATTCGAAACATTTACA
AAACAGTTTGGGAAATTTCTGTCAAGAATCAAATTCAGATGGCTGCTGATCGTGGTGCAT
ATATTGATCAAAGTCAATCTTTCAATATTCATGTTGCTGAACCCAATTATGGAAAATTGA
CATCAATTCATTTTTATGGTTGGAAATTGGGACTTAAAACGGGAATGTATTATTTAAGAA
CAAAACCAGCTGCAAATGCAATTCAATTTACAGTTGATAAAAATCGCTTAAATCAGCCTG
TTACAAATACTTCTACAACAAATGGTCATCATGCAAATAACGAATCTAATTCATCGTCTG
CCAAAAACTCACCAAATGTATCGCTCAATGGAACATTAAATGAAAACGGAGATACTAGTG
AACGTGAAGCTCGTATTGCTCAAATGGTATGCTCATTGGAAAATAAGGACGAATGCTTGA
TGTGTGGTTCTTAA
>g4510.t2 Gene=g4510 Length=498
MFYALWIPDLFMRRVENNEMWSLMCPHSCPGLYDTWGEEFEKIYEKYEAEGRYIRQIKAQ
DLWFAIIESQVETGTPYMLYKDACNRKSNQQNLGTIRCSNLCTEIVEYSSKDEIAVCNLA
SIALNMFVKANRKEYDFDKLKEVAKIATKNLNKIIDVNYYPVEEAKRSNMRHRPIGIGVQ
GLADTFIIMRMPYESLEARKLNEQIFETIYYGALEASCELAEKLGPYETYEGSPVSKGIL
QYDMWDKTPSDLWDWAALKAKIAKYGVRNSLLIAPMPTASTAQILGNNESFEPYTSNVYN
RRVLSGEFQVVNHHLIKDLTDCGLWDDDMKNRIIANNGSIQQIEEIPEHIRNIYKTVWEI
SVKNQIQMAADRGAYIDQSQSFNIHVAEPNYGKLTSIHFYGWKLGLKTGMYYLRTKPAAN
AIQFTVDKNRLNQPVTNTSTTNGHHANNESNSSSAKNSPNVSLNGTLNENGDTSEREARI
AQMVCSLENKDECLMCGS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g4510.t2 | Gene3D | G3DSA:3.20.70.20 | - | 1 | 423 | 1.3E-196 |
| 11 | g4510.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 438 | 462 | - |
| 2 | g4510.t2 | PANTHER | PTHR11573 | RIBONUCLEOSIDE-DIPHOSPHATE REDUCTASE LARGE CHAIN | 1 | 497 | 1.1E-224 |
| 7 | g4510.t2 | PRINTS | PR01183 | Ribonucleotide reductase large chain signature | 96 | 107 | 3.9E-58 |
| 4 | g4510.t2 | PRINTS | PR01183 | Ribonucleotide reductase large chain signature | 135 | 158 | 3.9E-58 |
| 3 | g4510.t2 | PRINTS | PR01183 | Ribonucleotide reductase large chain signature | 173 | 195 | 3.9E-58 |
| 6 | g4510.t2 | PRINTS | PR01183 | Ribonucleotide reductase large chain signature | 201 | 224 | 3.9E-58 |
| 5 | g4510.t2 | PRINTS | PR01183 | Ribonucleotide reductase large chain signature | 266 | 293 | 3.9E-58 |
| 1 | g4510.t2 | Pfam | PF02867 | Ribonucleotide reductase, barrel domain | 1 | 412 | 1.4E-150 |
| 10 | g4510.t2 | ProSitePatterns | PS00089 | Ribonucleotide reductase large subunit signature. | 255 | 277 | - |
| 8 | g4510.t2 | SUPERFAMILY | SSF51998 | PFL-like glycyl radical enzymes | 1 | 425 | 5.8E-150 |
| 12 | g4510.t2 | TIGRFAM | TIGR02506 | NrdE_NrdA: ribonucleoside-diphosphate reductase, alpha subunit | 1 | 416 | 6.0E-157 |
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:0006260 | DNA replication | BP |
| GO:0055114 | NA | NA |
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.
