General information for g12949.t16
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.t16 | TTS | g12949.t16 | 27101637 | 27101637 |
| chr_1 | g12949 | g12949.t16 | isoform | g12949.t16 | 27101708 | 27103122 |
| chr_1 | g12949 | g12949.t16 | exon | g12949.t16.exon1 | 27101708 | 27102063 |
| chr_1 | g12949 | g12949.t16 | cds | g12949.t16.CDS1 | 27102046 | 27102063 |
| chr_1 | g12949 | g12949.t16 | exon | g12949.t16.exon2 | 27102223 | 27102620 |
| chr_1 | g12949 | g12949.t16 | cds | g12949.t16.CDS2 | 27102223 | 27102620 |
| chr_1 | g12949 | g12949.t16 | exon | g12949.t16.exon3 | 27102783 | 27102853 |
| chr_1 | g12949 | g12949.t16 | cds | g12949.t16.CDS3 | 27102783 | 27102853 |
| chr_1 | g12949 | g12949.t16 | exon | g12949.t16.exon4 | 27103037 | 27103122 |
| chr_1 | g12949 | g12949.t16 | cds | g12949.t16.CDS4 | 27103037 | 27103122 |
| chr_1 | g12949 | g12949.t16 | TSS | g12949.t16 | 27103151 | 27103151 |
Sequences
>g12949.t16 Gene=g12949 Length=911
ATGACAGCAAGAATAAAAAAATCATTTTCTGATCTTGATGTGAATCCTTTACTTTATTGG
TTAACTTTGACTTATTTAATTACACGAACAATCGAAAAGTTCACAGGAACATCAGAATTT
TGGAGCAGTTTTTGGAATGGAATTATCGATTTTTTTGGTGAAGATGACTTCAATTTTAAA
TTTTTATATACGATGATTTACCTGAATATTATTTACTTTGGATTTGGATTTCTTTATGTA
ATAATGGACATCACAAATAAACCAAAGTTTATGCAAAAATACAAAACTCAACCTGAACAA
CATCAACCACTTGACATGAATAAATTTTTACCAGCCTTGATGGTTGTTATTTTCAATCAA
TTTATACTAAGTGGAATTGCAATTTATTGGACCTACAGATCAGGCGATTGGATGCTGTCA
ACCAATATTAGAGAGACTCCGACCTTCACAAGGTTAATTGCTGAAATTTTTGGCTTTGGT
TTAACCTATGAATTTGTTTTTTATTATTCACATCGGTTGCTTCATCACAAGAGTATTTAT
CAATACATTCACAAACATATTGTCACCCTATAGAACATATCGTCAGTAATCTTCTTCCAT
TTATTATCAGTAATCTTCTCTTTCGTCATACATTAGCCACAACATGGGTCATTTACGCTG
TAGCGATTATTTCGACTCTTGGTGACCACTCAGGATATCATTTGCCATTTCTTCATAGTC
CACAATTTCATGATTACCATCACTTGAAATTTTTTGAAAATTTTGGATCAAATGGATTTA
TTGACAAATTTCATGGCACAAACAAGAAATTTGAAGAATCAATTCAAGGATTAAGACATA
GAACTTTGTGGTCTTTAAAATCATCAAATGAATTATTTCCAGATGATAAAGTTACTGAGA
AAGAAAATTAA
>g12949.t16 Gene=g12949 Length=190
MTARIKKSFSDLDVNPLLYWLTLTYLITRTIEKFTGTSEFWSSFWNGIIDFFGEDDFNFK
FLYTMIYLNIIYFGFGFLYVIMDITNKPKFMQKYKTQPEQHQPLDMNKFLPALMVVIFNQ
FILSGIAIYWTYRSGDWMLSTNIRETPTFTRLIAEIFGFGLTYEFVFYYSHRLLHHKSIY
QYIHKHIVTL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 1 | g12949.t16 | PANTHER | PTHR11863:SF26 | FATTY ACID HYDROXYLASE DOMAIN-CONTAINING PROTEIN 2 | 32 | 185 | 1.0E-29 |
| 2 | g12949.t16 | PANTHER | PTHR11863 | STEROL DESATURASE | 32 | 185 | 1.0E-29 |
| 6 | g12949.t16 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 11 | - |
| 14 | g12949.t16 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 12 | 31 | - |
| 10 | g12949.t16 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 32 | 60 | - |
| 11 | g12949.t16 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 61 | 82 | - |
| 8 | g12949.t16 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 83 | 108 | - |
| 12 | g12949.t16 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 109 | 132 | - |
| 9 | g12949.t16 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 133 | 151 | - |
| 13 | g12949.t16 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 152 | 170 | - |
| 7 | g12949.t16 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 171 | 190 | - |
| 5 | g12949.t16 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 59 | 81 | - |
| 4 | g12949.t16 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 110 | 132 | - |
| 3 | g12949.t16 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 152 | 174 | - |
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