General information for g17142.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g17142 is located on chr_4: 12624321..12627083 (- 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 | g17142 | g17142.t1 | isoform | g17142.t1 | 12624321 | 12626390 |
| chr_4 | g17142 | g17142.t1 | exon | g17142.t1.exon1 | 12624321 | 12626390 |
| chr_4 | g17142 | g17142.t1 | cds | g17142.t1.CDS1 | 12624321 | 12626390 |
| chr_4 | g17142 | g17142.t1 | TSS | g17142.t1 | NA | NA |
| chr_4 | g17142 | g17142.t1 | TTS | g17142.t1 | NA | NA |
Sequences
>g17142.t1 Gene=g17142 Length=2070
ATGGCAGAATTAAAATCTGCACTTAATGAAGCAACTGAAGAATATGGAAAACTTGAAACA
AAAGCTAAAGCTGATGAAGTTCAACATCAACTTGACATTTCCGCTCTTAACAGTGTCATT
GAAGAACTTAAAACTGAACTTCGTCATGCAAATCATTTATTGAATGCTTTGAAGCAGGAA
AATGTTCAAATTGCTGTTGAAAAAATTTGTCCAAGTGTCAGTAAAAATCGTCATTCAATA
AGTTCAGTTTATTCAATGTATGTCAATGCAAATGAAGATTATGAGCAACTTTCAGTCGAA
CATGAACAGCTAAAACATCAATTTTCACGAGTTGTCGATGAAATTAAAGACAAAGCACCA
CAAATTCAAAGAACTCAAATTGAATTGACAAAATTAAAAGAAGAAAATGAAGAAATGCAA
GCCTTTTGTGATTCATTAAAAATTGATCGACTTATGTCACAAGAAAAAATCAATGGATTG
TTGCAAGAAGTGACAAAATTGAGTCAAAAAGTTAAAGAATTGCAGCAAGAAAAAACTTTA
ATGAGTCATCAAGTTTGTGAACTTTTGAGTTCAATTGAAGGAAAGAAAAATGATGAAAAT
AAGAAAAGTGATTTTAGTACTTTTAGAAATATTGAGGAACTTCAGCAAAATAATGTGCAA
TTGGTGAATTTAGTTAGAGAATTGACAGCATCAATTGAAGAACTTGAAAAGAAAAAAGAT
TTGAAAATTGATGAGAGTCAAAATTTAAAATCATCAAAAATTGAAAGTCAATCAGCTAAA
ATTGACGGACAAATTTCAAAAACTGAAAATTCAATGCCAAACCAGCAGAATGAATCAAAT
TTAGCTCAATCTTACTCAGATAGTCTAAAAGAAAAGATAAAAATACAACAAACCCAAATT
GAATCACTAAACAATCAATTGACTTCCCTAAAAACTCAACTTACAGAAGTTCAGTCATTA
AATTTCAAATTAAAATCACAACTTGAACATTCTGACGGTCAATTGAAGCTTCAACAAAAA
AATTTCGAAATGATGAAAAAGAAAATGCAAACTGTAGATGAAAAGAACCAAAATTCAATG
ACAACAATTGCAAAATTAGAAACAACTTTGGTGCATTTAAGAGAACAACTTCGTGATACA
ACAATGAAATTGACAAAAACTGAAAATTCACTTGCAAGTATCAATTATGAAAATAAAACT
TTAGTTCGAAGTGAAGCACAAAATCGAGCAAAAATTGAAACACAGGAAAAACAATCAAAA
ATTAATGGACATTTGATAACAAATTTGGAATTCATTCGTTCATCAATTGAAAGAATTGAA
AATTCAGGAAGTGCATTGAAATTGAAAGAAAAATGTGAAGAACTTGAGCAGCAACTTGAG
GAAGAGAAAAATAAATTAAAAGATTTTGAAAGTCAAGCAAATGCAGAAATTGAACAACTT
GAATGTGAAACGCAATTAATGCAAGATGAAATTTCAAAATTGAAAGAAATTTGTGAGAAA
AAATCGACAGAAATTGAAAAATTGAGTGAAAAAATTGCAAAATTTAAGAAGATTGGTGAA
AGTGAGCAATCAGACAGTTCAGAAAGTGACACTGAAGTTGCAAGATTGAAAGAAAATGTT
CAAAAATTGAGAAAAGTTGGTAAGCAATATCGTCAAGAATGTTTTGAACTCCGCAGTCAA
CTTGAGGAAGCAAAAGTTAAAAATGAAGAACTTCAAAATTCAAAAGCTAAAGAAGAATCA
ATGAGAAATTTATTGACAAAAGCAAAAAGCATGATTACAAAATTAAATGAAGAAAAAGAT
CAATTGAAACAAAAATTAAAAGCTGAAACTAGCGAATTTTTATCATGTGAAAGTCAAGAC
ATAACTTTGACTGATTTGAATGTTAGTTTTGCTAGAGATGAAATTCCAAGGACAAGCACA
AAGAAAAGAGCTCGCAGTGATGATGGTGATGATGATGATGTGATTATTTTAGAATGTAGT
GAGAAGAAAATTAAGAGTGAAGAGATTAAAGAAGTTGGAAATATTGAGATAAAGGAATTT
TATGGTTGTAAATATCCAATGATGGAATAG
>g17142.t1 Gene=g17142 Length=689
MAELKSALNEATEEYGKLETKAKADEVQHQLDISALNSVIEELKTELRHANHLLNALKQE
NVQIAVEKICPSVSKNRHSISSVYSMYVNANEDYEQLSVEHEQLKHQFSRVVDEIKDKAP
QIQRTQIELTKLKEENEEMQAFCDSLKIDRLMSQEKINGLLQEVTKLSQKVKELQQEKTL
MSHQVCELLSSIEGKKNDENKKSDFSTFRNIEELQQNNVQLVNLVRELTASIEELEKKKD
LKIDESQNLKSSKIESQSAKIDGQISKTENSMPNQQNESNLAQSYSDSLKEKIKIQQTQI
ESLNNQLTSLKTQLTEVQSLNFKLKSQLEHSDGQLKLQQKNFEMMKKKMQTVDEKNQNSM
TTIAKLETTLVHLREQLRDTTMKLTKTENSLASINYENKTLVRSEAQNRAKIETQEKQSK
INGHLITNLEFIRSSIERIENSGSALKLKEKCEELEQQLEEEKNKLKDFESQANAEIEQL
ECETQLMQDEISKLKEICEKKSTEIEKLSEKIAKFKKIGESEQSDSSESDTEVARLKENV
QKLRKVGKQYRQECFELRSQLEEAKVKNEELQNSKAKEESMRNLLTKAKSMITKLNEEKD
QLKQKLKAETSEFLSCESQDITLTDLNVSFARDEIPRTSTKKRARSDDGDDDDVIILECS
EKKIKSEEIKEVGNIEIKEFYGCKYPMME
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g17142.t1 | Coils | Coil | Coil | 1 | 28 | - |
| 9 | g17142.t1 | Coils | Coil | Coil | 33 | 60 | - |
| 7 | g17142.t1 | Coils | Coil | Coil | 87 | 107 | - |
| 6 | g17142.t1 | Coils | Coil | Coil | 122 | 149 | - |
| 11 | g17142.t1 | Coils | Coil | Coil | 157 | 184 | - |
| 5 | g17142.t1 | Coils | Coil | Coil | 211 | 252 | - |
| 2 | g17142.t1 | Coils | Coil | Coil | 286 | 320 | - |
| 8 | g17142.t1 | Coils | Coil | Coil | 363 | 383 | - |
| 3 | g17142.t1 | Coils | Coil | Coil | 445 | 518 | - |
| 4 | g17142.t1 | Coils | Coil | Coil | 533 | 612 | - |
| 1 | g17142.t1 | PANTHER | PTHR18898 | NUCLEOPROTEIN TPR-RELATED | 3 | 467 | 2.3E-41 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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