General information for g10459.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Acyl-lipid (8-3)-desaturase.
Parent gene
- The parent gene g10459 is located on chr_1: 9911424..9912740 (+ 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 | g10459 | g10459.t1 | TSS | g10459.t1 | 9911211 | 9911211 |
| chr_1 | g10459 | g10459.t1 | isoform | g10459.t1 | 9911424 | 9912740 |
| chr_1 | g10459 | g10459.t1 | exon | g10459.t1.exon1 | 9911424 | 9912740 |
| chr_1 | g10459 | g10459.t1 | cds | g10459.t1.CDS1 | 9911424 | 9912740 |
| chr_1 | g10459 | g10459.t1 | TTS | g10459.t1 | 9912869 | 9912869 |
Sequences
>g10459.t1 Gene=g10459 Length=1317
ATGACTTTGAAAATTACAAGCAAAGATTTAAGAAATCATTGTACAGAAAAATCAGCTTGG
ATTGCAATTCGCGGCAAAGTTTATGACGTCACATCGTTTATCACGCGACATCCTGGAGGT
AAAGACGCATTGCGTTTTGCTATTGGCCGTGACGCTACGACTGTATTTGAAAGTTATCAT
GATGTAGAAGTTGTAAGTCGTGTGCTGATTAAGCAGCCAATTGTTGGTGAACTGATTGGT
TCCGAAATGCCTGAATTTATTGAGCAAAGTGATTTTCATAAAACCATTGCTGATAAGGTT
CGCAAACGACTTCGTGACGAAGGTGTTGATATGAAAAATTCTTACAAAGCATGGCTCACA
TACAGCGTTATTTTATTGTCTATAATACTGAGCTTTTATCAACAATATTTCGGATGGATG
AGCAATTCAATTATCTTGCAAATTCCATGCGCAATAATATTAGGATTCTTTTGTGCACAA
CTGGGATTGCACATTTTGCATGACACTTCGCATTTTTCTATTACACATAATCCATTGGTA
TGGAAATACCTTGGATCTACACATGACTTTATTAATGGCTGCAGTTTTATTAAATGGACA
TATCAGCATACATTCGGTCATCATCCTTATACAAATATACAAAATGCAGATCCTGATATT
CATGTTAAAAAAGAACAAGATTTTTGTCGCATTTTGGATTTTCAAAATTGGTTCAATTAT
TACAAATTCCAGCACATTTATGGACCACTTCTTTATTGTTTACTCGCACTTAAAGTACGA
GTTCAAGATATCAAATCTCTTTATGTTTTGAAATCACATCGAAATATTGCTGTGAATCCA
TTGACATTTGGACAAAATTTTCAAACTATTGGTGGAAAAATTTTCTTTTTCTTATATCGA
ATTATACTACCTGTGATGATGGGTTTTACATGGACAAGAGTCATTGGACTATTCTTATTA
AGTGATTTTCTAACATCTTATTGGCTTGCACTACCATTTCAAGCTAACCATGTTGTTGCT
GATGTAGCACTACCAGTAAAGAGTTCAAAAAATATTGATTGGGCAAAAATGCAGATTTTA
ACAACCGTTGACTATGCAATAAATTCAATATTGACCCGTTATGTTGTGGGTTCATTGAAC
TTTCAAACTGTTCATCATCTTTTCCCTGGTGTGCTTCAGCATCACTATCCACTTATTCAA
GATATCATTTATGATGAATGCAAGAAACATGATGTGGAATATAATTTAAAAGGAAGTTTA
TTTGAAGCTATAGCAGCACATATTCAATACTTGAAGAAAATGGGGGAAGAAGAGTGA
>g10459.t1 Gene=g10459 Length=438
MTLKITSKDLRNHCTEKSAWIAIRGKVYDVTSFITRHPGGKDALRFAIGRDATTVFESYH
DVEVVSRVLIKQPIVGELIGSEMPEFIEQSDFHKTIADKVRKRLRDEGVDMKNSYKAWLT
YSVILLSIILSFYQQYFGWMSNSIILQIPCAIILGFFCAQLGLHILHDTSHFSITHNPLV
WKYLGSTHDFINGCSFIKWTYQHTFGHHPYTNIQNADPDIHVKKEQDFCRILDFQNWFNY
YKFQHIYGPLLYCLLALKVRVQDIKSLYVLKSHRNIAVNPLTFGQNFQTIGGKIFFFLYR
IILPVMMGFTWTRVIGLFLLSDFLTSYWLALPFQANHVVADVALPVKSSKNIDWAKMQIL
TTVDYAINSILTRYVVGSLNFQTVHHLFPGVLQHHYPLIQDIIYDECKKHDVEYNLKGSL
FEAIAAHIQYLKKMGEEE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 20 | g10459.t1 | CDD | cd03506 | Delta6-FADS-like | 148 | 412 | 1.1005E-42 |
| 9 | g10459.t1 | Gene3D | G3DSA:3.10.120.10 | Flavocytochrome B2 | 2 | 93 | 1.9E-23 |
| 3 | g10459.t1 | PANTHER | PTHR19353:SF37 | ACYL-LIPID (8-3)-DESATURASE B-RELATED | 12 | 437 | 6.1E-101 |
| 4 | g10459.t1 | PANTHER | PTHR19353 | FATTY ACID DESATURASE 2 | 12 | 437 | 6.1E-101 |
| 19 | g10459.t1 | PIRSF | PIRSF015921 | FA_sphingolip_des | 2 | 438 | 9.2E-99 |
| 7 | g10459.t1 | PRINTS | PR00363 | Cytochrome B5 signature | 27 | 37 | 5.0E-6 |
| 5 | g10459.t1 | PRINTS | PR00363 | Cytochrome B5 signature | 37 | 51 | 5.0E-6 |
| 6 | g10459.t1 | PRINTS | PR00363 | Cytochrome B5 signature | 66 | 78 | 5.0E-6 |
| 2 | g10459.t1 | Pfam | PF00173 | Cytochrome b5-like Heme/Steroid binding domain | 6 | 78 | 9.1E-22 |
| 1 | g10459.t1 | Pfam | PF00487 | Fatty acid desaturase | 147 | 415 | 1.0E-29 |
| 12 | g10459.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 117 | - |
| 16 | g10459.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 118 | 138 | - |
| 14 | g10459.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 139 | 143 | - |
| 18 | g10459.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 144 | 166 | - |
| 11 | g10459.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 167 | 296 | - |
| 15 | g10459.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 297 | 320 | - |
| 13 | g10459.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 321 | 325 | - |
| 17 | g10459.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 326 | 346 | - |
| 10 | g10459.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 347 | 438 | - |
| 25 | g10459.t1 | ProSitePatterns | PS00191 | Cytochrome b5 family, heme-binding domain signature. | 33 | 40 | - |
| 26 | g10459.t1 | ProSiteProfiles | PS50255 | Cytochrome b5 family, heme-binding domain profile. | 2 | 79 | 21.266 |
| 24 | g10459.t1 | SMART | SM01117 | Cyt_b5_2 | 5 | 79 | 1.4E-21 |
| 8 | g10459.t1 | SUPERFAMILY | SSF55856 | Cytochrome b5-like heme/steroid binding domain | 4 | 84 | 4.32E-25 |
| 21 | g10459.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 117 | 139 | - |
| 23 | g10459.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 144 | 166 | - |
| 22 | g10459.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 295 | 317 | - |
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:0020037 | heme binding | MF |
| GO:0016021 | integral component of membrane | CC |
| GO:0016491 | oxidoreductase activity | MF |
| GO:0006629 | lipid metabolic process | BP |
KEGG
Orthology
- This transcript has been annotated with K10226 (acyl-CoA 6-desaturase (Delta-6 desaturase))
Pathway
- This transcript belongs to the following pathways
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.
