General information for g6617.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Ribonucleoside-diphosphate reductase subunit M2.
Parent gene
- The parent gene g6617 is located on chr_2: 17825507..17826455 (+ 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 | g6617 | g6617.t3 | TSS | g6617.t3 | 17823834 | 17823834 |
| chr_2 | g6617 | g6617.t3 | isoform | g6617.t3 | 17823921 | 17824950 |
| chr_2 | g6617 | g6617.t3 | exon | g6617.t3.exon1 | 17823921 | 17823992 |
| chr_2 | g6617 | g6617.t3 | cds | g6617.t3.CDS1 | 17823921 | 17823992 |
| chr_2 | g6617 | g6617.t3 | exon | g6617.t3.exon2 | 17824100 | 17824387 |
| chr_2 | g6617 | g6617.t3 | cds | g6617.t3.CDS2 | 17824100 | 17824387 |
| chr_2 | g6617 | g6617.t3 | exon | g6617.t3.exon3 | 17824650 | 17824950 |
| chr_2 | g6617 | g6617.t3 | cds | g6617.t3.CDS3 | 17824650 | 17824949 |
| chr_2 | g6617 | g6617.t3 | TTS | g6617.t3 | 17825681 | 17825681 |
Sequences
>g6617.t3 Gene=g6617 Length=661
ATGTCTTTAATTAAAATTGTTCAAGAAAAAGAAAACAATATTGCAGACACAATGGAAAAG
TTTTCATTAAAAAGTCCTCGAAAGGTATTGACTGAAAATGAAGTAAATTTACCTTCCAAA
CTTCCAAAGTTGTTGAAAGGAATGGACGATGGTTCACAAGGAACTGAAAATAAAGAAGCT
GACTTGAGCAAAGTCATAAAATCAGAGGAGGCACAAGTTGGTGCAATTGCTCACAAGAAA
AGCACCTATAATTTTGATCCATCACTCGAACCACTGCTACGTGATAATCCAAGACGTTTT
GTCATTTTCCCTATTGAATATTCCGACATTTGGCAAATGTACAAAAAGGTCTGTATCACA
GAAGAAGTTGATCTCTCTAAAGATATGAATGATTGGAATAATTTAAAAGATTGTGAACGA
CATTTTATATCGCATGTATTAGCTTTCTTTGCGGCATCGGATGGAATAGTAAATGAAAAT
CTTGTTGAACGCTTTAGTCAAGAAGTTCAAGTAACAGAAGCTCGCTGCTTTTATGGCTTT
CAAATAGCTATGGAAAATGTTCATTCAGAAATGTATTCGTTACTCATTGAGACTTATGTT
CGTGATTCTAAAGAACGTGAATTTCTCTTTAATGCTATTCAAACTTTGCCTTGTGTTAAA
A
>g6617.t3 Gene=g6617 Length=220
MSLIKIVQEKENNIADTMEKFSLKSPRKVLTENEVNLPSKLPKLLKGMDDGSQGTENKEA
DLSKVIKSEEAQVGAIAHKKSTYNFDPSLEPLLRDNPRRFVIFPIEYSDIWQMYKKVCIT
EEVDLSKDMNDWNNLKDCERHFISHVLAFFAASDGIVNENLVERFSQEVQVTEARCFYGF
QIAMENVHSEMYSLLIETYVRDSKEREFLFNAIQTLPCVK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g6617.t3 | CDD | cd01049 | RNRR2 | 100 | 220 | 2.67921E-54 |
| 6 | g6617.t3 | Gene3D | G3DSA:1.10.620.20 | Ribonucleotide Reductase | 46 | 220 | 1.2E-56 |
| 2 | g6617.t3 | PANTHER | PTHR23409:SF20 | RIBONUCLEOSIDE-DIPHOSPHATE REDUCTASE SUBUNIT M2 | 75 | 220 | 4.7E-75 |
| 3 | g6617.t3 | PANTHER | PTHR23409 | RIBONUCLEOSIDE-DIPHOSPHATE REDUCTASE SMALL CHAIN | 75 | 220 | 4.7E-75 |
| 1 | g6617.t3 | Pfam | PF00268 | Ribonucleotide reductase, small chain | 99 | 220 | 3.3E-47 |
| 5 | g6617.t3 | ProSitePatterns | PS00368 | Ribonucleotide reductase small subunit signature. | 184 | 200 | - |
| 4 | g6617.t3 | SUPERFAMILY | SSF47240 | Ferritin-like | 72 | 219 | 5.6E-47 |
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:0009263 | deoxyribonucleotide biosynthetic process | BP |
| GO:0055114 | NA | NA |
| GO:0016491 | oxidoreductase activity | MF |
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.
