General information for g12949.t20
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Fatty acid hydroxylase domain-containing protein 2.
Parent gene
- The parent gene g12949 is located on chr_1: 27101708..27103122 (- 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_1 | g12949 | g12949.t20 | TTS | g12949.t20 | 27101637 | 27101637 |
| chr_1 | g12949 | g12949.t20 | isoform | g12949.t20 | 27101708 | 27103122 |
| chr_1 | g12949 | g12949.t20 | exon | g12949.t20.exon1 | 27101708 | 27102084 |
| chr_1 | g12949 | g12949.t20 | cds | g12949.t20.CDS1 | 27101708 | 27102070 |
| chr_1 | g12949 | g12949.t20 | exon | g12949.t20.exon2 | 27102223 | 27102620 |
| chr_1 | g12949 | g12949.t20 | exon | g12949.t20.exon3 | 27102762 | 27102853 |
| chr_1 | g12949 | g12949.t20 | exon | g12949.t20.exon4 | 27103037 | 27103122 |
| chr_1 | g12949 | g12949.t20 | TSS | g12949.t20 | 27103151 | 27103151 |
Sequences
>g12949.t20 Gene=g12949 Length=953
ATGACAGCAAGAATAAAAAAATCATTTTCTGATCTTGATGTGAATCCTTTACTTTATTGG
TTAACTTTGACTTATTTAATTACACGAACAATCGAAAAGTTCACAGGAACATCAGAATTT
TGGAGCAGTTTTTGGAATGGAATTATCGATTTTTTTGGTATGTTTACACAAAAGCTATGT
GAAGATGACTTCAATTTTAAATTTTTATATACGATGATTTACCTGAATATTATTTACTTT
GGATTTGGATTTCTTTATGTAATAATGGACATCACAAATAAACCAAAGTTTATGCAAAAA
TACAAAACTCAACCTGAACAACATCAACCACTTGACATGAATAAATTTTTACCAGCCTTG
ATGGTTGTTATTTTCAATCAATTTATACTAAGTGGAATTGCAATTTATTGGACCTACAGA
TCAGGCGATTGGATGCTGTCAACCAATATTAGAGAGACTCCGACCTTCACAAGGTTAATT
GCTGAAATTTTTGGCTTTGGTTTAACCTATGAATTTGTTTTTTATTATTCACATCGGTTG
CTTCATCACAAGAGTATTTATCAATACATTCACAAACGCCTGTGGCTTTAATGGCAGCAT
ATTGTCACCCTATAGAACATATCGTCAGTAATCTTCTTCCATTTATTATCAGTAATCTTC
TCTTTCGTCATACATTAGCCACAACATGGGTCATTTACGCTGTAGCGATTATTTCGACTC
TTGGTGACCACTCAGGATATCATTTGCCATTTCTTCATAGTCCACAATTTCATGATTACC
ATCACTTGAAATTTTTTGAAAATTTTGGATCAAATGGATTTATTGACAAATTTCATGGCA
CAAACAAGAAATTTGAAGAATCAATTCAAGGATTAAGACATAGAACTTTGTGGTCTTTAA
AATCATCAAATGAATTATTTCCAGATGATAAAGTTACTGAGAAAGAAAATTAA
>g12949.t20 Gene=g12949 Length=120
MAAYCHPIEHIVSNLLPFIISNLLFRHTLATTWVIYAVAIISTLGDHSGYHLPFLHSPQF
HDYHHLKFFENFGSNGFIDKFHGTNKKFEESIQGLRHRTLWSLKSSNELFPDDKVTEKEN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g12949.t20 | PANTHER | PTHR11863:SF26 | FATTY ACID HYDROXYLASE DOMAIN-CONTAINING PROTEIN 2 | 2 | 112 | 0 |
| 3 | g12949.t20 | PANTHER | PTHR11863 | STEROL DESATURASE | 2 | 112 | 0 |
| 1 | g12949.t20 | Pfam | PF04116 | Fatty acid hydroxylase superfamily | 2 | 84 | 0 |
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:0005506 | iron ion binding | MF |
| GO:0055114 | NA | NA |
| GO:0016491 | oxidoreductase activity | MF |
| GO:0008610 | lipid biosynthetic process | BP |
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