Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Fatty acid hydroxylase domain-containing protein 2.

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 g12949 g12949.t11 TTS g12949.t11 27101637 27101637
chr_1 g12949 g12949.t11 isoform g12949.t11 27101708 27103122
chr_1 g12949 g12949.t11 exon g12949.t11.exon1 27101708 27102084
chr_1 g12949 g12949.t11 exon g12949.t11.exon2 27102195 27102620
chr_1 g12949 g12949.t11 cds g12949.t11.CDS1 27102217 27102620
chr_1 g12949 g12949.t11 exon g12949.t11.exon3 27102783 27102853
chr_1 g12949 g12949.t11 cds g12949.t11.CDS2 27102783 27102853
chr_1 g12949 g12949.t11 exon g12949.t11.exon4 27103037 27103122
chr_1 g12949 g12949.t11 cds g12949.t11.CDS3 27103037 27103122
chr_1 g12949 g12949.t11 TSS g12949.t11 27103151 27103151

Sequences

>g12949.t11 Gene=g12949 Length=960
ATGACAGCAAGAATAAAAAAATCATTTTCTGATCTTGATGTGAATCCTTTACTTTATTGG
TTAACTTTGACTTATTTAATTACACGAACAATCGAAAAGTTCACAGGAACATCAGAATTT
TGGAGCAGTTTTTGGAATGGAATTATCGATTTTTTTGGTGAAGATGACTTCAATTTTAAA
TTTTTATATACGATGATTTACCTGAATATTATTTACTTTGGATTTGGATTTCTTTATGTA
ATAATGGACATCACAAATAAACCAAAGTTTATGCAAAAATACAAAACTCAACCTGAACAA
CATCAACCACTTGACATGAATAAATTTTTACCAGCCTTGATGGTTGTTATTTTCAATCAA
TTTATACTAAGTGGAATTGCAATTTATTGGACCTACAGATCAGGCGATTGGATGCTGTCA
ACCAATATTAGAGAGACTCCGACCTTCACAAGGTTAATTGCTGAAATTTTTGGCTTTGGT
TTAACCTATGAATTTGTTTTTTATTATTCACATCGGTTGCTTCATCACAAGAGTATTTAT
CAATACATTCACAAAGTATGATTCATTTCTAAGCTTAAAATTTCGCCTGTGGCTTTAATG
GCAGCATATTGTCACCCTATAGAACATATCGTCAGTAATCTTCTTCCATTTATTATCAGT
AATCTTCTCTTTCGTCATACATTAGCCACAACATGGGTCATTTACGCTGTAGCGATTATT
TCGACTCTTGGTGACCACTCAGGATATCATTTGCCATTTCTTCATAGTCCACAATTTCAT
GATTACCATCACTTGAAATTTTTTGAAAATTTTGGATCAAATGGATTTATTGACAAATTT
CATGGCACAAACAAGAAATTTGAAGAATCAATTCAAGGATTAAGACATAGAACTTTGTGG
TCTTTAAAATCATCAAATGAATTATTTCCAGATGATAAAGTTACTGAGAAAGAAAATTAA

>g12949.t11 Gene=g12949 Length=186
MTARIKKSFSDLDVNPLLYWLTLTYLITRTIEKFTGTSEFWSSFWNGIIDFFGEDDFNFK
FLYTMIYLNIIYFGFGFLYVIMDITNKPKFMQKYKTQPEQHQPLDMNKFLPALMVVIFNQ
FILSGIAIYWTYRSGDWMLSTNIRETPTFTRLIAEIFGFGLTYEFVFYYSHRLLHHKSIY
QYIHKV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
1 g12949.t11 PANTHER PTHR11863:SF26 FATTY ACID HYDROXYLASE DOMAIN-CONTAINING PROTEIN 2 32 185 7.2E-30
2 g12949.t11 PANTHER PTHR11863 STEROL DESATURASE 32 185 7.2E-30
7 g12949.t11 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 11 -
15 g12949.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 31 -
11 g12949.t11 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 32 60 -
12 g12949.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 61 82 -
9 g12949.t11 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 83 108 -
13 g12949.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 109 132 -
10 g12949.t11 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 133 151 -
14 g12949.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 152 170 -
8 g12949.t11 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 171 186 -
6 g12949.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 12 31 -
5 g12949.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 59 81 -
4 g12949.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 110 132 -
3 g12949.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 147 169 -

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