General information for g17115.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g17115 is located on chr_4: 12520921..12522713 (+ 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_4 | g17115 | g17115.t6 | TSS | g17115.t6 | 12520527 | 12520527 |
| chr_4 | g17115 | g17115.t6 | isoform | g17115.t6 | 12520921 | 12522713 |
| chr_4 | g17115 | g17115.t6 | exon | g17115.t6.exon1 | 12520921 | 12521227 |
| chr_4 | g17115 | g17115.t6 | exon | g17115.t6.exon2 | 12521314 | 12522150 |
| chr_4 | g17115 | g17115.t6 | cds | g17115.t6.CDS1 | 12521910 | 12522150 |
| chr_4 | g17115 | g17115.t6 | exon | g17115.t6.exon3 | 12522268 | 12522713 |
| chr_4 | g17115 | g17115.t6 | cds | g17115.t6.CDS2 | 12522268 | 12522713 |
| chr_4 | g17115 | g17115.t6 | TTS | g17115.t6 | 12522787 | 12522787 |
Sequences
>g17115.t6 Gene=g17115 Length=1590
ATGGATTATTCATCAAATGATTTTCAAATCCCAGACTCTCAACAAATAGTTCAATTGAAA
GAATTAAGAATATGTCAAAAGCAATATTTGGAAGAATTAAAAAGAAAAGAAAAAGAAGAA
CAAGAAGCATATAGAGAAGATTTGAAGGGTATTATGAGTGATTTTGATCCTGATAAATAC
AAAAGTGGACAAGATCAAAAAGAGCTCGTTCATAATCCAATGTTTAAAAATATCTTAATG
GGATCTAAATGGATGATGGAAGAACCTAAAGATCTTGATAATTATTTATTGATTCCTTGT
CCTAAAGCAATTTTAGATACTTTTAAAACTTTGTTGGAAAACTTACAAATTTATGTCTTG
ACCAATTCAGTTTTATATCCAGAAAATTTTTATATTTTAATCAAGCTGCCATGACTTCTG
CAAACAACTTGTCTTTCAACTCTGTTTTATAATTCCCACAGAAATTCCGTAAAATTTTTC
ATTTCTATCTGGTCAATGCATCACATCTTTCTTAAAAATTTAAATTTTACAAATAAATTT
AAGAGTAATTTTCAAAATTTTTAGGCGTAAGAGTTTCAATAACACGACAAGAGGAAAAAC
TTTCAGAAGTTTTTTCACGTGATGGACACAAACTTATGGATTTGATGTTAAATATTCCCA
AAAATACACAAATTGATGGAATTTTATGCAAAAAGAATAAAACCATTTACATTTTGGATG
TTTTATGGTAAAATACTGACAAATTTCTTATTTTACTTTTTTTTCCTTTGCGTGGACTCA
TGAAAAAAATTAATAAATTTGAAAAAGACCATTATGTGTCCGCGCCTTATTAATTTCTTG
AATTATTTATCAATTATTTGAAATTACAACTTTAAATTTTCCCCTAGGTATGACGACAAT
GACATGAGAGTTTCAGAAACTTCATTTCGTCGTTATTGGATAAGAAGTAAATTTTATGAG
CGTAGATTGGGAGTAATTGATCAAAATAGTGGCTACAAAATGAGCTTCATTGAAAGTTAT
GACTTTACAAGACCTGATCAGATAAATTATTGTTTTCAAAAATTCCCAATATTTGAAGGA
GTCGATCTTGATGGATTTTTATTTTATCATAAAGATTTGCTTTATGAAAAGGGAGAAAAT
AACAGAGTTTTATGGCTTTTTCCTTACATGGTTGATGAAGTTTTTGCAATGTTTCGTGTT
CACAAAGATTACAGTCTATATAAGCCAATAAATTACACAAATTATCTTGAATACATCGAA
AAATTCAATGAAAAGCAGAAAAAGAAACAAAAAATGAAAAACAAAAGAAAATCAAAAGAA
ACAACAGAAACAAAAGTTGATTATCAAAGCAGTAATTTATACAGTTTTGATGATATTAAA
GATCCAAAAAAGAGAAATGCAGATTTTGAGAAATTTTGTCAATTTGATGATGATTGGTTT
AAAGCAGGACCGAGTAATAACAAGAGACAACAAGATTTTAGTCAAGATGAAATGTTCAGC
TATGGAAGACCAGAAAATAGAAGAAAAAATAAAATTCAACAACTTTTCGATGAACGAGAA
AGAGCGTGGAGAATTTATTTTGATTCTTAA
>g17115.t6 Gene=g17115 Length=228
MRVSETSFRRYWIRSKFYERRLGVIDQNSGYKMSFIESYDFTRPDQINYCFQKFPIFEGV
DLDGFLFYHKDLLYEKGENNRVLWLFPYMVDEVFAMFRVHKDYSLYKPINYTNYLEYIEK
FNEKQKKKQKMKNKRKSKETTETKVDYQSSNLYSFDDIKDPKKRNADFEKFCQFDDDWFK
AGPSNNKRQQDFSQDEMFSYGRPENRRKNKIQQLFDERERAWRIYFDS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 3 | g17115.t6 | Coils | Coil | Coil | 114 | 144 | - |
| 2 | g17115.t6 | Gene3D | G3DSA:3.30.470.30 | DNA ligase/mRNA capping enzyme | 1 | 107 | 1.1E-18 |
| 1 | g17115.t6 | PANTHER | PTHR13403 | SNURPORTIN1 RNUT1 PROTEIN RNA, U TRANSPORTER 1 | 4 | 164 | 2.3E-13 |
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:0005634 | nucleus | CC |
| GO:0061015 | snRNA import into nucleus | BP |
| GO:0005737 | cytoplasm | CC |
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.
