General information for g7056.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Cytoplasmic tRNA 2-thiolation protein 2.
Parent gene
- The parent gene g7056 is located on chr_2: 20897781..20899112 (- 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 | g7056 | g7056.t1 | TTS | g7056.t1 | 20897637 | 20897637 |
| chr_2 | g7056 | g7056.t1 | isoform | g7056.t1 | 20897781 | 20899112 |
| chr_2 | g7056 | g7056.t1 | exon | g7056.t1.exon1 | 20897781 | 20899112 |
| chr_2 | g7056 | g7056.t1 | cds | g7056.t1.CDS1 | 20897781 | 20899112 |
| chr_2 | g7056 | g7056.t1 | TSS | g7056.t1 | 20899178 | 20899178 |
Sequences
>g7056.t1 Gene=g7056 Length=1332
ATGTGTAGCATAGGAGAAGAGGACTTTGGTGATGAAGGAGGTGCACACGCAATGATTGAG
GACATTAAATCATTGGAAATTGTTGATGAAATTTGTAAAAAGTGCTCAAACGAAAAAAGT
GTGATAAATATTATATATGCAATGTGCAAAACTTGTTTTCTTCATTATGTTACTCATAAG
TTCAGAGCGTCTTTAAGTGCCTCAAAAATAGTACCTAGTAATTCTAAGGTACTATTGAAT
TTTTCCGGCTATGCACCTGATGTTTGTATTTTAGATATGATAGATAAAGGATTATTATTG
GAATATCATAAGAAACTACGTTTTGAACTTGAGATAATTTACATTGATGAGGATTGTCTA
AATGAAGGAAATGATATCAATGATTTAAAAAGGAGATACGAAAGAATTGACAAAGTAAAG
AAGATATTAGAACAATTTGTCAAATTTAAATGTCATTACTCATCGATTGCTAATAAATAC
ATAGTGTTGCCTTTAGATGATATAAAAGAAAACGATATGAATGCTGTAATTAATGATGAA
ATAAAACTTCTCGCATATTTGAAATCACTTAAATCATCGACATGTAAGCAAGATTATGTA
GATATCATTCGAAATGAGAACCTCAGACACATTGCAAATCAACTCAATTGTCAGTTTGTT
TTCCTTACTGATACTACTATCGATTTAGCAAAGCGATTTATCAGTAATATGGCTTTGGGT
AGAGGATCTTCAGTAGCATTTGATGTTTCATTTTGTGATGATAGAGTAAAATCGATAAGA
TTTCTTCGGCCAATCAAAAATGTAAACATGATAGAAGTCGAAAGCTATATAAAATTGAAA
GATTTAGATGTAATTGGCGCACAAAAAGAAATCTCTAATACAAATCAGTTAAGCATTCAA
AACGTAACGTCTCAATTTATCGATGGTTTACAACAGAACTTTTCTTCAACAGTATCTACA
GTTGCTCGTGGTTGTAGTAAAATTGCCCCATATAAAAAATCAAATCAATCAAATCATGTC
AATGGAGAAATTTCATCAAAATTGAATCAAACATCTGCTTCTGTTACAGATATCAATCAA
CGATGCTATTTATGCAAATCATTTTTAGATTATCAAAATTCAGAAACACTTTATGCAATC
GAATTTTCACGTTTTGTGTCCGAAGCGGCAGCTGACATCGAACATATTTTGAAAAATACT
GAAAAAATTGAAGAGAAAGCTATGAGTGAAGTAAACAGCAATGAAAATGAATTTAAAAAA
CATTTATGTCACGGCTGTCGTAATATTTTCATTGGATCAAGTGATGATATTTTAGCTGAA
ATTTTTCAATAA
>g7056.t1 Gene=g7056 Length=443
MCSIGEEDFGDEGGAHAMIEDIKSLEIVDEICKKCSNEKSVINIIYAMCKTCFLHYVTHK
FRASLSASKIVPSNSKVLLNFSGYAPDVCILDMIDKGLLLEYHKKLRFELEIIYIDEDCL
NEGNDINDLKRRYERIDKVKKILEQFVKFKCHYSSIANKYIVLPLDDIKENDMNAVINDE
IKLLAYLKSLKSSTCKQDYVDIIRNENLRHIANQLNCQFVFLTDTTIDLAKRFISNMALG
RGSSVAFDVSFCDDRVKSIRFLRPIKNVNMIEVESYIKLKDLDVIGAQKEISNTNQLSIQ
NVTSQFIDGLQQNFSSTVSTVARGCSKIAPYKKSNQSNHVNGEISSKLNQTSASVTDINQ
RCYLCKSFLDYQNSETLYAIEFSRFVSEAAADIEHILKNTEKIEEKAMSEVNSNENEFKK
HLCHGCRNIFIGSSDDILAEIFQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g7056.t1 | Coils | Coil | Coil | 397 | 417 | - |
| 5 | g7056.t1 | Gene3D | G3DSA:3.40.50.620 | HUPs | 31 | 381 | 8.6E-34 |
| 3 | g7056.t1 | Hamap | MF_03054 | Cytoplasmic tRNA 2-thiolation protein 2 [CTU2]. | 23 | 434 | 21.36289 |
| 2 | g7056.t1 | PANTHER | PTHR20882 | CYTOPLASMIC TRNA 2-THIOLATION PROTEIN 2 | 29 | 430 | 7.7E-63 |
| 1 | g7056.t1 | Pfam | PF10288 | Cytoplasmic tRNA 2-thiolation protein 2 | 298 | 427 | 2.4E-16 |
| 4 | g7056.t1 | SUPERFAMILY | SSF52402 | Adenine nucleotide alpha hydrolases-like | 52 | 307 | 4.05E-5 |
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:0002098 | tRNA wobble uridine modification | BP |
| GO:0034227 | tRNA thio-modification | BP |
| GO:0000049 | tRNA binding | MF |
KEGG
Orthology
- This transcript has been annotated with K14169 (cytoplasmic tRNA 2-thiolation protein 2)
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.
