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.t10 TTS g12949.t10 27101637 27101637
chr_1 g12949 g12949.t10 isoform g12949.t10 27101708 27103122
chr_1 g12949 g12949.t10 exon g12949.t10.exon1 27101708 27101982
chr_1 g12949 g12949.t10 cds g12949.t10.CDS1 27101708 27101982
chr_1 g12949 g12949.t10 exon g12949.t10.exon2 27102038 27102123
chr_1 g12949 g12949.t10 cds g12949.t10.CDS2 27102038 27102123
chr_1 g12949 g12949.t10 exon g12949.t10.exon3 27102326 27102620
chr_1 g12949 g12949.t10 cds g12949.t10.CDS3 27102326 27102620
chr_1 g12949 g12949.t10 exon g12949.t10.exon4 27102783 27102853
chr_1 g12949 g12949.t10 cds g12949.t10.CDS4 27102783 27102853
chr_1 g12949 g12949.t10 exon g12949.t10.exon5 27103037 27103122
chr_1 g12949 g12949.t10 cds g12949.t10.CDS5 27103037 27103122
chr_1 g12949 g12949.t10 TSS g12949.t10 27103151 27103151

Sequences

>g12949.t10 Gene=g12949 Length=813
ATGACAGCAAGAATAAAAAAATCATTTTCTGATCTTGATGTGAATCCTTTACTTTATTGG
TTAACTTTGACTTATTTAATTACACGAACAATCGAAAAGTTCACAGGAACATCAGAATTT
TGGAGCAGTTTTTGGAATGGAATTATCGATTTTTTTGGTGAAGATGACTTCAATTTTAAA
TTTTTATATACGATGATTTACCTGAATATTATTTACTTTGGATTTGGATTTCTTTATGTA
ATAATGGACATCACAAATAAACCAAAGTTTATGCAAAAATACAAAACTCAACCTGAACAA
CATCAACCACTTGACATGAATAAATTTTTACCAGCCTTGATGGTTGTTATTTTCAATCAA
TTTATACTAAGTGGAATTGCAATTTATTGGACCTACAGATCAGGCGATTGGATGCTGTCA
ACCAATATTAGAGAGACTCCGACCTTCACAAGTGATATTAATCATTTGAATACCTTTATT
ATATTTTTCAGCGCCTGTGGCTTTAATGGCAGCATATTGTCACCCTATAGAACATATCCC
ACAACATGGGTCATTTACGCTGTAGCGATTATTTCGACTCTTGGTGACCACTCAGGATAT
CATTTGCCATTTCTTCATAGTCCACAATTTCATGATTACCATCACTTGAAATTTTTTGAA
AATTTTGGATCAAATGGATTTATTGACAAATTTCATGGCACAAACAAGAAATTTGAAGAA
TCAATTCAAGGATTAAGACATAGAACTTTGTGGTCTTTAAAATCATCAAATGAATTATTT
CCAGATGATAAAGTTACTGAGAAAGAAAATTAA

>g12949.t10 Gene=g12949 Length=270
MTARIKKSFSDLDVNPLLYWLTLTYLITRTIEKFTGTSEFWSSFWNGIIDFFGEDDFNFK
FLYTMIYLNIIYFGFGFLYVIMDITNKPKFMQKYKTQPEQHQPLDMNKFLPALMVVIFNQ
FILSGIAIYWTYRSGDWMLSTNIRETPTFTSDINHLNTFIIFFSACGFNGSILSPYRTYP
TTWVIYAVAIISTLGDHSGYHLPFLHSPQFHDYHHLKFFENFGSNGFIDKFHGTNKKFEE
SIQGLRHRTLWSLKSSNELFPDDKVTEKEN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g12949.t10 PANTHER PTHR11863:SF26 FATTY ACID HYDROXYLASE DOMAIN-CONTAINING PROTEIN 2 32 162 2.9E-42
4 g12949.t10 PANTHER PTHR11863 STEROL DESATURASE 32 162 2.9E-42
1 g12949.t10 PANTHER PTHR11863:SF26 FATTY ACID HYDROXYLASE DOMAIN-CONTAINING PROTEIN 2 181 262 2.9E-42
3 g12949.t10 PANTHER PTHR11863 STEROL DESATURASE 181 262 2.9E-42
9 g12949.t10 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 11 -
17 g12949.t10 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 31 -
13 g12949.t10 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 32 60 -
15 g12949.t10 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 61 82 -
10 g12949.t10 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 83 108 -
16 g12949.t10 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 109 132 -
12 g12949.t10 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 133 155 -
14 g12949.t10 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 156 176 -
11 g12949.t10 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 177 270 -
8 g12949.t10 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 59 81 -
7 g12949.t10 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 110 132 -
6 g12949.t10 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 153 173 -
5 g12949.t10 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 183 205 -

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