General information for g17625.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g17625 is located on HiC_scaffold_19: 1..1132 (+ 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_19 | g17625 | g17625.t1 | isoform | g17625.t1 | 1 | 1132 |
| HiC_scaffold_19 | g17625 | g17625.t1 | exon | g17625.t1.exon1 | 1 | 454 |
| HiC_scaffold_19 | g17625 | g17625.t1 | cds | g17625.t1.CDS1 | 409 | 454 |
| HiC_scaffold_19 | g17625 | g17625.t1 | exon | g17625.t1.exon2 | 667 | 1033 |
| HiC_scaffold_19 | g17625 | g17625.t1 | cds | g17625.t1.CDS2 | 667 | 1033 |
| HiC_scaffold_19 | g17625 | g17625.t1 | exon | g17625.t1.exon3 | 1096 | 1132 |
| HiC_scaffold_19 | g17625 | g17625.t1 | cds | g17625.t1.CDS3 | 1096 | 1132 |
| HiC_scaffold_19 | g17625 | g17625.t1 | TTS | g17625.t1 | 1241 | 1241 |
| HiC_scaffold_19 | g17625 | g17625.t1 | TSS | g17625.t1 | NA | NA |
Sequences
>g17625.t1 Gene=g17625 Length=858
CCAACATTAAGAAATGGAACTTTTAGAGCATTAACAAATCTTGTGACACTTCAGCTTAGC
GGTTGTAACGTAAGCGAAATTGAAAATGATGCATTTGATGGACTAACGAATTTGACAAGT
TTATATCTGAATTTTAATGATATTGAAGACCTTGAAGTTGGAGTTTTTCGTACTTTGAGT
CGATTAATATATTTGGGATTATGGAACAGTAGATTGAAAACTTTGAGAAGAAATCCTTTC
GGTCCAAATATTACAACAATTGCAACAATTGATTTAGATGGAAATGTTGTAAATTCACTT
GAAAGAAGTCTTTTTGATGATTTGACTGGCCTGAATTTGCTTTACTTTACTAATAATCTT
TGTGCTAGCGGAGTTTTCAGTGGTTTCATCGCTAATCGATTAGAATTTATGCAAAGACTT
GAAAGATGCTTCAGAAACTTTGAGTTAATTATTGATACCGTGACTGACAACAATGTCGAT
TATCTTTTCTTCCGTGGTGAAAATCCTGGAATTGTTGCTCGAGTGCAAGCTGAAGATGAA
ATTCAAATTGCATTGACACCATTTAATTTTCCATGGTCACCAATGATTGAGGTCATTATT
GGAGCAGCAAACAATACACGATCAATCATCAGACGAAATCAAGTTGAAGATGTGGCTGTT
GTGCCATCACCAGGAATCATCAGGAGCAATCAACAAAATTTATTCAGAATAGTTTGGGCA
AATCATGTGATTTTGGTGTTTAGAGAAAATGAGCAATGGCCATTTTTGGTTCACACAATG
ATTGACTTTTTTAATGTCAATTTCTATGGATTGAGAACTTTACAAAGTCGTGCAACATGG
AGCATTCAACCAGTTTGA
>g17625.t1 Gene=g17625 Length=149
MQRLERCFRNFELIIDTVTDNNVDYLFFRGENPGIVARVQAEDEIQIALTPFNFPWSPMI
EVIIGAANNTRSIIRRNQVEDVAVVPSPGIIRSNQQNLFRIVWANHVILVFRENEQWPFL
VHTMIDFFNVNFYGLRTLQSRATWSIQPV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value |
|---|---|---|---|---|---|---|
| g17625.t1 | Pfam | PF12248 | Farnesoic acid 0-methyl transferase | 47 | 140 | 0 |
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