General information for g8673.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 5’-3’ exoribonuclease 2-like protein.
Parent gene
- The parent gene g8673 is located on chr_2: 32188481..32190037 (+ 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 | g8673 | g8673.t4 | TSS | g8673.t4 | 32185667 | 32185667 |
| chr_2 | g8673 | g8673.t4 | isoform | g8673.t4 | 32185768 | 32187698 |
| chr_2 | g8673 | g8673.t4 | exon | g8673.t4.exon1 | 32185768 | 32185842 |
| chr_2 | g8673 | g8673.t4 | exon | g8673.t4.exon2 | 32185918 | 32186323 |
| chr_2 | g8673 | g8673.t4 | exon | g8673.t4.exon3 | 32186399 | 32187698 |
| chr_2 | g8673 | g8673.t4 | cds | g8673.t4.CDS1 | 32186537 | 32187697 |
| chr_2 | g8673 | g8673.t4 | TTS | g8673.t4 | NA | NA |
Sequences
>g8673.t4 Gene=g8673 Length=1781
ATGGGAGTTCCAGCATTCTTTAGATGGTTATCAAGAAAGTATCCTAGTGTGATTATTGAA
TGTACAGAAAATAAGCGTGTTGATGAAGAAACAGGAAAGAATGTATACGAAGATTCATCA
TTACCCAATCCAAATGATATAGAATTTGACAATCTTTATCTCGATATGAACGGAATTATT
CATCCTTGCACACATCCAGAAGATAAACCGCCTCCAAAAAATGAAAATGAGATGATGATT
GCCATTTTTGAATGCATTGATCGACTTTTCTCAATTGTAAGACCAAGAAAATTACTTTAT
ATGGCAATTGATGGCGTTGCACCTCGAGCTAAAATGAATCAGCAACGTTCAAGACGTTTT
CGAGCTTCAAAAGAAGCTGCCGAAAAAGCAGCTGAAATTGCTCGAATAAGAGAAGAATTG
AAAGAAAAAGGAGCTATTCTTCCACCTGAAAAACCAAAAGAACATCATTTTGATTCAAAT
TGGAACACCATTTATGGAGAGGCTAAGTAGATGTTTGCAGTACTACATTCATGATCGTTT
AAATAATGATCCAGGATGGCGAAATATTAAAGTAATTTTGTCTGATGCAAATGTTCCAGG
TGAAGGTGAACACAAAATTATGGATTATATTCGTAAACAAAGAGCTCAACCTGATCACGA
TCCAAATACACAGCATGTACTTTGTGGGGCTGATGCTGATTTAATTATGCTTGGGCTTGC
AACTCATGAACCTAATTTTACTATCATTCGTGAAGAGTTTCTTCCCAATAAGCCTCGTCC
CTGTGACATTTGTTCTCAAATGGGCCATGAAATGAAAGATTGTTCCGGTTTAGATATGGA
ATATCATCAACAGCCTGAAATACAATTTGGAAAGGAAACACAATTTATTTTTGTGCGTTT
AAATGTGCTCAAAGAATATCTAGCTAAAGAACTTCAAATGCCTAATTTACCATTTAAATA
TGATTTTGAGAGAGTTATAGACGATTGGGTTTTCATGTGTTTCTTTGTTGGAAATGATTT
CCTTCCTCATTTGCCGAGTTTAGAAATTCGAGAGAATGCAATTGATCGATTAATTCATTT
ATATAAAAAGTGTGTATATAAAACTGGCGGTTATTTGACTGATTCGGGTGATGTAGCACT
GGAACGAGTTGAAATGATTATGCGTGATTTGGGTGCAGTTGAAGATGAAATTTTTAGAGA
ACGTCAGCAGAATGAGGAACGTATGAAGGCTAGAAATAAACGAATGAAACTTGAGCGTCA
ACAAAGACCAAATTTTGAAATGATTCATAAGACACAATTTGCACCAACTGCTGTTGGAAG
AGGCATTACACCGAATGCAATTGTAAATGCTAAAGAAGATATTTTGCGCATCAGTAAAAT
GGCAATGGAATCTACTGCATCAAATAATGATGCTTTAGAGTCAATGCTTAAGCCTGTTGG
TGAGAGTGATTCACCAAATAATCAAAATCGTAGAGGGATCAAAAGAAAAGCAGAAGATGA
GTCAGTAAAAGAAGAAGATGAAGAAGAGGATGATCAAGCACATGACGAAGTTCGATTATG
GGAAGATGGGTTTAAAGATCGGTATTATGAGTCTAAATTCGATGTTATGCCAGATAACAT
TCAATTTCGTTATTCTGTTGCACTTCAATACGTAAAAGGTTTGTGCTGGGTGCTGCAATA
TTATTATCAAGGTTGTGCAAGTTGGGAATGGTATTTTCCATTTCATTATGCTCCATTTGC
TTCTGATTTTGTAAATATCAAGGGGTTAAGCAAGAAATTTG
>g8673.t4 Gene=g8673 Length=387
MDYIRKQRAQPDHDPNTQHVLCGADADLIMLGLATHEPNFTIIREEFLPNKPRPCDICSQ
MGHEMKDCSGLDMEYHQQPEIQFGKETQFIFVRLNVLKEYLAKELQMPNLPFKYDFERVI
DDWVFMCFFVGNDFLPHLPSLEIRENAIDRLIHLYKKCVYKTGGYLTDSGDVALERVEMI
MRDLGAVEDEIFRERQQNEERMKARNKRMKLERQQRPNFEMIHKTQFAPTAVGRGITPNA
IVNAKEDILRISKMAMESTASNNDALESMLKPVGESDSPNNQNRRGIKRKAEDESVKEED
EEEDDQAHDEVRLWEDGFKDRYYESKFDVMPDNIQFRYSVALQYVKGLCWVLQYYYQGCA
SWEWYFPFHYAPFASDFVNIKGLSKKF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g8673.t4 | Coils | Coil | Coil | 194 | 214 | - |
| 6 | g8673.t4 | Gene3D | G3DSA:3.40.50.12390 | - | 1 | 147 | 4.7E-25 |
| 5 | g8673.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 271 | 309 | - |
| 3 | g8673.t4 | PANTHER | PTHR12341:SF41 | 5’-3’ EXORIBONUCLEASE 2 | 1 | 384 | 1.9E-120 |
| 4 | g8673.t4 | PANTHER | PTHR12341 | 5’->3’ EXORIBONUCLEASE | 1 | 384 | 1.9E-120 |
| 2 | g8673.t4 | Pfam | PF03159 | XRN 5’-3’ exonuclease N-terminus | 1 | 46 | 1.2E-16 |
| 1 | g8673.t4 | Pfam | PF17846 | Xrn1 helical domain | 113 | 387 | 1.2E-95 |
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:0004527 | exonuclease activity | MF |
| GO:0003676 | nucleic acid 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