General information for g17217.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g17217 is located on chr_4: 12850854..12854621 (- 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 | g17217 | g17217.t3 | isoform | g17217.t3 | 12850227 | 12851882 |
| chr_4 | g17217 | g17217.t3 | exon | g17217.t3.exon1 | 12850227 | 12851526 |
| chr_4 | g17217 | g17217.t3 | cds | g17217.t3.CDS1 | 12850854 | 12851526 |
| chr_4 | g17217 | g17217.t3 | exon | g17217.t3.exon2 | 12851581 | 12851653 |
| chr_4 | g17217 | g17217.t3 | cds | g17217.t3.CDS2 | 12851581 | 12851591 |
| chr_4 | g17217 | g17217.t3 | exon | g17217.t3.exon3 | 12851716 | 12851882 |
| chr_4 | g17217 | g17217.t3 | TSS | g17217.t3 | NA | NA |
| chr_4 | g17217 | g17217.t3 | TTS | g17217.t3 | NA | NA |
Sequences
>g17217.t3 Gene=g17217 Length=1540
TACGTATTGCTTAAAAAAATTACAAAAAAGTGAAGAATGAGCAAGGGGGCTGAGTTTAAA
AGTAGCTCATACCACGTATGACTAATTCTAAGAATCAAGACAAAGAAGAAAATTGAACTG
GAATAATCGACAAATAAATTGAGTGACAAATTTTTTAAAAAAATTTGCAGAGTGACGAAT
AAACCAAATAAAAGTAAAAGAATTTTACTTTGAAGAAAATTTCACAAAAATGGACGCTCA
AGAAAATAATAATGATGTTAAAACAACTGTTGATGAAGATATTGTTACGGAAGAGCAAAA
TGACTCAGGCATTGGCACTGATGCATCTTCAGTGTCTTCTGACGCGAGCTACCAAACTGT
TTTGAGCAACACTTCTATTTCTTTAGATTCGATGAATATAAATAGCTCAGAAGAAGATGA
AAAGAATGCTGATGCACAACTGGATTTTGCTCTAGAAGACACTCTTGAATTAATAATTGA
ACGAGATGATAAAGAAATTCCATTAAACATGGACAAAACTGCGACAATTTCTGATGTTCT
TAATCAAGCATCTTTAATTGGAAATTTTACAAGTGATGATTTTGATTTGTCAATTGATAG
CAAAACTTTACCACGAACAATCAGTCTTCGTGATGCAGCCATCACTTATGGAAGTCGCAT
TCGTTTAGTTGAGCGTCCATTTCAAATTTTTATTCGTCGTGTTGATGGTCGCATTTTGAC
TTTGGATGTCACTTCCTCAAACACTATTGAATATTTGAAAGAACGATTCAATTACACTGA
TCAAGTTCCAATTCATCAACAAAGATTGTTGTATCAAAGTCAAGAATTGGAAAATTCACG
TACTTTGCAATTTTATAAAATTCGCAAAAATGCAACACTTGAAATGGTCTACAGACTTCG
TGGTGGATTTTAATAATCTGGTAGAAATTTATTAACTTTGCAGCTTGCATTTGAAAACAT
TTTTTAATACAAATTACAGAATGTAATGCAGATTCTGTTTAAAAATAATAAAATCAAAAA
TGAACTAAATTTCTTTTGATTTTAGTTAAATTTTAGATTACCGTTTTTAATAACAAGTGA
TTTCTTTAAAGTTCAATATTGTCATAAGTTTAATTCAGTGAGTAAGTAAACTTTGAGTGT
TTTTAGGTGAAATATCAAGTAAAATAGTTTTCTTAAAATTGTCACATCTGCAAACTTTGA
AAATTTAACCATCTGTGTTGAGAAGAAAAAATCAAAGTGTGAAATTAATAACTTAATAAC
AACAACTCAAGTGCTGCTGCATGATGCAAAACTTATATCAACGCGTGCAAGGTCACGTGT
CATCAATTTGAGCTAATAAAATTGTTTAAATAAGACAGTAATCGATCCTAATTAAATAAT
AATCTCATTTCTATTTATTCAGGTGTCCAAAAGTAAGCAACCATCGCATGTTAATTGACA
TAAAATTAAATAATGAATTTTTAAATTTAACACACAGAAAGAGAAAAAAAAAACCATGAA
AAATCATGCATGAAAATGCTTCAAAATATGTTTACAAAAA
>g17217.t3 Gene=g17217 Length=227
MDAQENNNDVKTTVDEDIVTEEQNDSGIGTDASSVSSDASYQTVLSNTSISLDSMNINSS
EEDEKNADAQLDFALEDTLELIIERDDKEIPLNMDKTATISDVLNQASLIGNFTSDDFDL
SIDSKTLPRTISLRDAAITYGSRIRLVERPFQIFIRRVDGRILTLDVTSSNTIEYLKERF
NYTDQVPIHQQRLLYQSQELENSRTLQFYKIRKNATLEMVYRLRGGF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g17217.t3 | Gene3D | G3DSA:3.10.20.90 | - | 148 | 227 | 1.4E-22 |
| 12 | g17217.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 39 | - |
| 13 | g17217.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 23 | 39 | - |
| 2 | g17217.t3 | PANTHER | PTHR10666 | UBIQUITIN | 47 | 226 | 2.1E-18 |
| 3 | g17217.t3 | PANTHER | PTHR10666:SF350 | UBIQUITIN 13 | 47 | 226 | 2.1E-18 |
| 6 | g17217.t3 | PRINTS | PR00348 | Ubiquitin signature | 161 | 181 | 8.2E-12 |
| 5 | g17217.t3 | PRINTS | PR00348 | Ubiquitin signature | 182 | 202 | 8.2E-12 |
| 4 | g17217.t3 | PRINTS | PR00348 | Ubiquitin signature | 203 | 224 | 8.2E-12 |
| 1 | g17217.t3 | Pfam | PF00240 | Ubiquitin family | 153 | 224 | 9.0E-16 |
| 14 | g17217.t3 | ProSiteProfiles | PS50053 | Ubiquitin domain profile. | 151 | 226 | 19.782 |
| 10 | g17217.t3 | SMART | SM00213 | ubq_7 | 79 | 149 | 18.0 |
| 11 | g17217.t3 | SMART | SM00213 | ubq_7 | 151 | 222 | 2.2E-14 |
| 8 | g17217.t3 | SUPERFAMILY | SSF54236 | Ubiquitin-like | 86 | 149 | 9.52E-6 |
| 7 | g17217.t3 | SUPERFAMILY | SSF54236 | Ubiquitin-like | 149 | 226 | 1.17E-19 |
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:0005515 | protein 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.
