General information for g17670.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g17670 is located on HiC_scaffold_46: 443..1110 (+ 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 |
|---|---|---|---|---|---|---|
| HiC_scaffold_46 | g17670 | g17670.t1 | isoform | g17670.t1 | 443 | 1110 |
| HiC_scaffold_46 | g17670 | g17670.t1 | exon | g17670.t1.exon1 | 443 | 571 |
| HiC_scaffold_46 | g17670 | g17670.t1 | cds | g17670.t1.CDS1 | 443 | 571 |
| HiC_scaffold_46 | g17670 | g17670.t1 | exon | g17670.t1.exon2 | 628 | 764 |
| HiC_scaffold_46 | g17670 | g17670.t1 | cds | g17670.t1.CDS2 | 628 | 764 |
| HiC_scaffold_46 | g17670 | g17670.t1 | exon | g17670.t1.exon3 | 819 | 1110 |
| HiC_scaffold_46 | g17670 | g17670.t1 | cds | g17670.t1.CDS3 | 819 | 1110 |
| HiC_scaffold_46 | g17670 | g17670.t1 | TSS | g17670.t1 | NA | NA |
| HiC_scaffold_46 | g17670 | g17670.t1 | TTS | g17670.t1 | NA | NA |
Sequences
>g17670.t1 Gene=g17670 Length=558
ATGCAATCAGATTTATCTAATAATAAAATAGAAATGGCTGATGGAAAGGAAACAAATACA
GTTAATGTCAATAGAAAAGCTAAGCCTAAACGGCTCAATCCAGAAAGATTCTCGATTTTT
GTTTATAAAATATTGAAGGAACTTCATCCTAACACGGAAATATCGCGTCATGCAATGGCA
ATAATGAATTGTATTATAATCAATCGTTTGAGCAATTTGAAGGAAATTGATATAATTACA
ACGCGTGAAGTACAACGAGCTGTTCTGCGTGGACACACAAAAAAAGAGCAAAAAAGAGCG
GTTCGGAGTAATCAAGAGGAAAAAAGAGCACTTAGGAGCACATGGAGCACTTCGGAGCAA
TTTGGAGCTCTTGGAGCACTTTGGAGCATTTGGAACACTTCGGAGCAATTTGGAGCTCTT
GGAGTACTTTGGAGCACTTCAGAGCACTTTAGAGCTATCTTTTTTTGCTTAATTATAATG
GATATAATCAGTAATAGATTTGGGATTATTTTAATTATTTTTTGGTGTTTTAAAGTAATT
TTTTGCCACGTTCTCTAA
>g17670.t1 Gene=g17670 Length=185
MQSDLSNNKIEMADGKETNTVNVNRKAKPKRLNPERFSIFVYKILKELHPNTEISRHAMA
IMNCIIINRLSNLKEIDIITTREVQRAVLRGHTKKEQKRAVRSNQEEKRALRSTWSTSEQ
FGALGALWSIWNTSEQFGALGVLWSTSEHFRAIFFCLIIMDIISNRFGIILIIFWCFKVI
FCHVL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g17670.t1 | Gene3D | G3DSA:1.10.20.10 | Histone | 4 | 108 | 9.3E-11 |
| 3 | g17670.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 20 | - |
| 4 | g17670.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 28 | - |
| 6 | g17670.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 151 | - |
| 8 | g17670.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 152 | 175 | - |
| 7 | g17670.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 176 | 185 | - |
| 2 | g17670.t1 | SUPERFAMILY | SSF47113 | Histone-fold | 15 | 91 | 5.65E-12 |
| 1 | g17670.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 153 | 175 | - |
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:0046982 | protein heterodimerization activity | 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