General information for g6864.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Three prime repair exonuclease 2.
Parent gene
- The parent gene g6864 is located on chr_2: 19281305..19282366 (+ 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 | g6864 | g6864.t1 | TSS | g6864.t1 | 19281271 | 19281271 |
| chr_2 | g6864 | g6864.t1 | isoform | g6864.t1 | 19281305 | 19282366 |
| chr_2 | g6864 | g6864.t1 | exon | g6864.t1.exon1 | 19281305 | 19282366 |
| chr_2 | g6864 | g6864.t1 | cds | g6864.t1.CDS1 | 19281305 | 19282366 |
| chr_2 | g6864 | g6864.t1 | TTS | g6864.t1 | 19282450 | 19282450 |
Sequences
>g6864.t1 Gene=g6864 Length=1062
ATGGGCGAAACAGCAGCATTTAAATCACTAGCTTTTATTGATTTGGAGACAACAGGATTG
CCACAATTTGAGTCCAAAAGAATAAAAATTACACAACTAAGCATTATAGCTTGTACTGTA
GATCATATAAAAGAATTAAAAAGTAGACATGACCTTCCTAGAGTTCTTCATAAGCTAACT
CTGTGTTTCAATCCATTTAAACTGATAAAATTAGACGTATCAAAAATTACTGGACTTTCT
AATGAACTTTTAGAAAATGAAAGCAAATTTGATGAAAATGCAGCAGCACTTATCATTAAT
TTTCTCTCCCGACTACAACATCCAGTTATGCTTTGCGCGCACAATGGATATCGCTTTGAT
TATCCCATTCTTAAAACGCAATTAACTGCTCTCAATACATCACTTCCTAGCGATATCAAA
TGCTGTGATTCTTTCGAGATATTCCGAAATATTGATGAAACCTATGAAAAAAATTCTAAA
ACACTTATTAATGGTGAACGACTAACGTCATGGGAAAAGATCAAAGATGAGGAATTAGCC
ATGATCGAAGCGGAAATTATAGAAATTGAATCTTTCTTTGAAAATTATGTGAATGATGAT
GATGATGATGATTATAGTTATGAAACAATCACAAAGTTGGAAAAGGAATTTTGTAATTTA
GACAAATGCAAAGTTAAAGAAAATAAAAATGAGGATGAAGCTATGAAAGATCTACAGATT
TTAAATGAAACAACGCCGAAAAAAACAATAATTCAAGGAAACAAGAGGCCTCGAAAGAAA
GAAGATGAGAGTGAAGTATGCAAAAGAAATTCAAAAGTCAGTCGTGAACTATTTCCAAGT
GAACCATCAAGCTCAAAAAGTAATGGGTTCAAGAAATGGCCTAAAGGAAAGTACAAATTG
TGTGAAATTTATAGAAGACTATTTGATAAACTACCAGAAAATTGTCATGATGCAGAAAGT
GATTGCATGACATTAATGAAGTCAGTCATAGCATGTAAGAAAGAATTTTTAGAAATTGCT
GAACTTATGAACAAAAATTTTTGTGATGTGAAAGAACTTTAA
>g6864.t1 Gene=g6864 Length=353
MGETAAFKSLAFIDLETTGLPQFESKRIKITQLSIIACTVDHIKELKSRHDLPRVLHKLT
LCFNPFKLIKLDVSKITGLSNELLENESKFDENAAALIINFLSRLQHPVMLCAHNGYRFD
YPILKTQLTALNTSLPSDIKCCDSFEIFRNIDETYEKNSKTLINGERLTSWEKIKDEELA
MIEAEIIEIESFFENYVNDDDDDDYSYETITKLEKEFCNLDKCKVKENKNEDEAMKDLQI
LNETTPKKTIIQGNKRPRKKEDESEVCKRNSKVSRELFPSEPSSSKSNGFKKWPKGKYKL
CEIYRRLFDKLPENCHDAESDCMTLMKSVIACKKEFLEIAELMNKNFCDVKEL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g6864.t1 | Gene3D | G3DSA:3.30.420.10 | - | 7 | 251 | 1.6E-43 |
| 7 | g6864.t1 | Gene3D | G3DSA:3.30.420.10 | - | 255 | 350 | 7.2E-9 |
| 5 | g6864.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 246 | 265 | - |
| 1 | g6864.t1 | PANTHER | PTHR13058 | THREE PRIME REPAIR EXONUCLEASE 1, 2 | 6 | 349 | 4.4E-48 |
| 2 | g6864.t1 | PANTHER | PTHR13058:SF19 | THREE-PRIME REPAIR EXONUCLEASE 1 | 6 | 349 | 4.4E-48 |
| 4 | g6864.t1 | SMART | SM00479 | exoiiiendus | 9 | 338 | 0.003 |
| 3 | g6864.t1 | SUPERFAMILY | SSF53098 | Ribonuclease H-like | 8 | 349 | 1.63E-38 |
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:0003676 | nucleic acid binding | MF |
KEGG
Orthology
- This transcript has been annotated with K10790 (three prime repair exonuclease 1)
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.
