Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Delta(5) fatty acid desaturase A.

Parent gene

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.t2 TSS g10459.t2 9911211 9911211
chr_1 g10459 g10459.t2 isoform g10459.t2 9911424 9912392
chr_1 g10459 g10459.t2 exon g10459.t2.exon1 9911424 9911756
chr_1 g10459 g10459.t2 cds g10459.t2.CDS1 9911424 9911756
chr_1 g10459 g10459.t2 exon g10459.t2.exon2 9911887 9912392
chr_1 g10459 g10459.t2 cds g10459.t2.CDS2 9911887 9912234
chr_1 g10459 g10459.t2 TTS g10459.t2 9912869 9912869

Sequences

>g10459.t2 Gene=g10459 Length=839
ATGACTTTGAAAATTACAAGCAAAGATTTAAGAAATCATTGTACAGAAAAATCAGCTTGG
ATTGCAATTCGCGGCAAAGTTTATGACGTCACATCGTTTATCACGCGACATCCTGGAGGT
AAAGACGCATTGCGTTTTGCTATTGGCCGTGACGCTACGACTGTATTTGAAAGTTATCAT
GATGTAGAAGTTGTAAGTCGTGTGCTGATTAAGCAGCCAATTGTTGGTGAACTGATTGGT
TCCGAAATGCCTGAATTTATTGAGCAAAGTGATTTTCATAAAACCATTGCTGATAAGGTT
CGCAAACGACTTCGTGACGAAGGTGTTGATATGGATTCTTTTGTGCACAACTGGGATTGC
ACATTTTGCATGACACTTCGCATTTTTCTATTACACATAATCCATTGGTATGGAAATACC
TTGGATCTACACATGACTTTATTAATGGCTGCAGTTTTATTAAATGGACATATCAGCATA
CATTCGGTCATCATCCTTATACAAATATACAAAATGCAGATCCTGATATTCATGTTAAAA
AAGAACAAGATTTTTGTCGCATTTTGGATTTTCAAAATTGGTTCAATTATTACAAATTCC
AGCACATTTATGGACCACTTCTTTATTGTTTACTCGCACTTAAAGTACGAGTTCAAGATA
TCAAATCTCTTTATGTTTTGAAATCACATCGAAATATTGCTGTGAATCCATTGACATTTG
GACAAAATTTTCAAACTATTGGTGGAAAAATTTTCTTTTTCTTATATCGAATTATACTAC
CTGTGATGATGGGTTTTACATGGACAAGAGTCATTGGACTATTCTTATTAAGTGATTTT

>g10459.t2 Gene=g10459 Length=226
MTLKITSKDLRNHCTEKSAWIAIRGKVYDVTSFITRHPGGKDALRFAIGRDATTVFESYH
DVEVVSRVLIKQPIVGELIGSEMPEFIEQSDFHKTIADKVRKRLRDEGVDMDSFVHNWDC
TFCMTLRIFLLHIIHWYGNTLDLHMTLLMAAVLLNGHISIHSVIILIQIYKMQILIFMLK
KNKIFVAFWIFKIGSIITNSSTFMDHFFIVYSHLKYEFKISNLFMF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g10459.t2 Gene3D G3DSA:3.10.120.10 Flavocytochrome B2 2 93 5.4E-24
2 g10459.t2 PANTHER PTHR19353:SF14 DELTA(5) FATTY ACID DESATURASE C-RELATED 16 154 7.7E-21
3 g10459.t2 PANTHER PTHR19353 FATTY ACID DESATURASE 2 16 154 7.7E-21
6 g10459.t2 PRINTS PR00363 Cytochrome B5 signature 27 37 1.0E-6
4 g10459.t2 PRINTS PR00363 Cytochrome B5 signature 37 51 1.0E-6
5 g10459.t2 PRINTS PR00363 Cytochrome B5 signature 66 78 1.0E-6
1 g10459.t2 Pfam PF00173 Cytochrome b5-like Heme/Steroid binding domain 6 78 2.8E-22
10 g10459.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 119 -
15 g10459.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 120 137 -
11 g10459.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 138 142 -
14 g10459.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 143 167 -
9 g10459.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 168 187 -
13 g10459.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 188 211 -
12 g10459.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 212 226 -
19 g10459.t2 ProSitePatterns PS00191 Cytochrome b5 family, heme-binding domain signature. 33 40 -
21 g10459.t2 ProSiteProfiles PS50255 Cytochrome b5 family, heme-binding domain profile. 2 79 21.266
20 g10459.t2 SMART SM01117 Cyt_b5_2 5 79 1.4E-21
7 g10459.t2 SUPERFAMILY SSF55856 Cytochrome b5-like heme/steroid binding domain 4 84 1.26E-25
18 g10459.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 113 135 -
16 g10459.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 145 167 -
17 g10459.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 188 210 -

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

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