General information for g8187.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Double-strand break repair protein MRE11.
Parent gene
- The parent gene g8187 is located on chr_2: 28975551..28977884 (+ 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 | g8187 | g8187.t2 | TSS | g8187.t2 | 28975470 | 28975470 |
| chr_2 | g8187 | g8187.t2 | isoform | g8187.t2 | 28975551 | 28977111 |
| chr_2 | g8187 | g8187.t2 | exon | g8187.t2.exon1 | 28975551 | 28975668 |
| chr_2 | g8187 | g8187.t2 | exon | g8187.t2.exon2 | 28975757 | 28975880 |
| chr_2 | g8187 | g8187.t2 | exon | g8187.t2.exon3 | 28975937 | 28976256 |
| chr_2 | g8187 | g8187.t2 | exon | g8187.t2.exon4 | 28976325 | 28977111 |
| chr_2 | g8187 | g8187.t2 | cds | g8187.t2.CDS1 | 28976523 | 28977110 |
| chr_2 | g8187 | g8187.t2 | TTS | g8187.t2 | 28978013 | 28978013 |
Sequences
>g8187.t2 Gene=g8187 Length=1349
ATGTCAGGAGAAACTTTTGAAGATAATGCAAATGAAGGCATCGAACCTGAAAATATAATA
AAGATTCTCATTGCAACTGACATTCATTTAGGATACGATGAATCAAATGAAGAAACAGGT
AATGATTCCTTCAATACATTTGAAGAAATACTTATGCTTGCTAATAGTCGAAATGTGGAC
TTTATTCTTCTGGCTGGTGATCTGTTTCATAAAGCACAACCTTCAGCAAATTCACTCAAC
AAATGTATCCAGTTACTTCGTACATATACATTAGGACGTAAAGAGATTGAATTTGAGGTA
ACAGACATAGCAACAGGAGAACCTATGCAATTTCAAAGAAATCCCAATTTTGAAAATGAA
AGTCTTTCTGCAACTACTGCTCCAATTAATTATGAAGATGATAACATTAACGTCTCTTAT
CCTGTATTTACAATTCACGGTAACCACGATGATGTAGTTAACAGTCTTAGTGCAATCGAT
ATTCTCAGTTCAAGTGGTTTAGTTAACTATTTTGGCAAATGGGAAGATCTTTCTGAAATA
CATCTTCGTCCAATTATCATTCAAAAAAGCAACATCAATTGCTCTCTATGGACTAAGTCA
CATTCCAGATCGTAGATTGTACAATTTACTTGAAAATGATAAAGTTTATGTTGAATATCC
AGGTAAAGATATTGGAGAAACAGTCACTGATTATTTCAATATTCTTGCAATTCATCAAAA
TCGAGTTGAACGAGGTCGTAATAATCACATTCCTGTTGATATGTTGCCTAATTTCATGAA
TCTCATCGTTTGGGGACACGAACATGATTGCCGTATTCATCCTGAACAATATAGTAGAAT
GTTTGTTACGCAACCTGGCTCTTCAGTAGCAACCTCTCTATGCGAAGGTGAATCGATTGA
AAAACATGTAGGGATTTTGCAAGTTTGTTGCAATCCATTAAGTAATAACATAGCAAAACA
TCAATTTCTAATCACACCTGTTAAACTAAAAACTGTACGTCCTCTTATTTATAAATCGAT
TGATTTTAATGATTATATTGAAGAACTTGAGTTAAAAGAAAATAAAATCTCAGTTCAAGT
TGAAACTTTGCTCTCTAATTTAGTATTTGAAATGATTAGAGAAGCTAAAGAACGTCTCAC
AGGACATCCTCGTCAACCAAAAAGTCCTCTTCTACGTCTACGTGTTCAATACGATAATGT
TGATCATCTGATCAACACACGACGCTTTGGACAACGCTTTGATGGTGTGGTTGCTAAGAA
TGAAGATTTATTACTATTTAAGAAAAGTACTCGTCGAATTAGACTTGAAAAACCAAGCAT
TGATGATAAACTTTTAAAATCTACCAAAA
>g8187.t2 Gene=g8187 Length=196
MLPNFMNLIVWGHEHDCRIHPEQYSRMFVTQPGSSVATSLCEGESIEKHVGILQVCCNPL
SNNIAKHQFLITPVKLKTVRPLIYKSIDFNDYIEELELKENKISVQVETLLSNLVFEMIR
EAKERLTGHPRQPKSPLLRLRVQYDNVDHLINTRRFGQRFDGVVAKNEDLLLFKKSTRRI
RLEKPSIDDKLLKSTK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g8187.t2 | Gene3D | G3DSA:3.60.21.10 | - | 1 | 80 | 0e+00 |
| 7 | g8187.t2 | Gene3D | G3DSA:3.30.110.110 | - | 82 | 183 | 0e+00 |
| 2 | g8187.t2 | PANTHER | PTHR10139 | DOUBLE-STRAND BREAK REPAIR PROTEIN MRE11 | 1 | 181 | 0e+00 |
| 3 | g8187.t2 | PANTHER | PTHR10139:SF1 | DOUBLE-STRAND BREAK REPAIR PROTEIN MRE11 | 1 | 181 | 0e+00 |
| 1 | g8187.t2 | Pfam | PF04152 | Mre11 DNA-binding presumed domain | 69 | 181 | 0e+00 |
| 5 | g8187.t2 | SMART | SM01347 | Mre11_DNA_bind_2 | 69 | 191 | 0e+00 |
| 4 | g8187.t2 | SUPERFAMILY | SSF56300 | Metallo-dependent phosphatases | 2 | 127 | 3e-07 |
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:0006302 | double-strand break repair | BP |
| GO:0005634 | nucleus | CC |
| GO:0004519 | endonuclease activity | MF |
| GO:0030145 | manganese ion binding | 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. There were no conditions that were differentially expressed