General information for g12949.t27
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.t27 | TTS | g12949.t27 | 27101637 | 27101637 |
| chr_1 | g12949 | g12949.t27 | isoform | g12949.t27 | 27101708 | 27103122 |
| chr_1 | g12949 | g12949.t27 | exon | g12949.t27.exon1 | 27101708 | 27102084 |
| chr_1 | g12949 | g12949.t27 | exon | g12949.t27.exon2 | 27102195 | 27102620 |
| chr_1 | g12949 | g12949.t27 | cds | g12949.t27.CDS1 | 27102217 | 27102620 |
| chr_1 | g12949 | g12949.t27 | exon | g12949.t27.exon3 | 27102756 | 27102853 |
| chr_1 | g12949 | g12949.t27 | cds | g12949.t27.CDS2 | 27102756 | 27102853 |
| chr_1 | g12949 | g12949.t27 | exon | g12949.t27.exon4 | 27103037 | 27103122 |
| chr_1 | g12949 | g12949.t27 | cds | g12949.t27.CDS3 | 27103037 | 27103122 |
| chr_1 | g12949 | g12949.t27 | TSS | g12949.t27 | 27103151 | 27103151 |
Sequences
>g12949.t27 Gene=g12949 Length=987
ATGACAGCAAGAATAAAAAAATCATTTTCTGATCTTGATGTGAATCCTTTACTTTATTGG
TTAACTTTGACTTATTTAATTACACGAACAATCGAAAAGTTCACAGGAACATCAGAATTT
TGGAGCAGTTTTTGGAATGGAATTATCGATTTTTTTGGTATGTTTACACAAAAGCTATGT
GAAGGTGAAGATGACTTCAATTTTAAATTTTTATATACGATGATTTACCTGAATATTATT
TACTTTGGATTTGGATTTCTTTATGTAATAATGGACATCACAAATAAACCAAAGTTTATG
CAAAAATACAAAACTCAACCTGAACAACATCAACCACTTGACATGAATAAATTTTTACCA
GCCTTGATGGTTGTTATTTTCAATCAATTTATACTAAGTGGAATTGCAATTTATTGGACC
TACAGATCAGGCGATTGGATGCTGTCAACCAATATTAGAGAGACTCCGACCTTCACAAGG
TTAATTGCTGAAATTTTTGGCTTTGGTTTAACCTATGAATTTGTTTTTTATTATTCACAT
CGGTTGCTTCATCACAAGAGTATTTATCAATACATTCACAAAGTATGATTCATTTCTAAG
CTTAAAATTTCGCCTGTGGCTTTAATGGCAGCATATTGTCACCCTATAGAACATATCGTC
AGTAATCTTCTTCCATTTATTATCAGTAATCTTCTCTTTCGTCATACATTAGCCACAACA
TGGGTCATTTACGCTGTAGCGATTATTTCGACTCTTGGTGACCACTCAGGATATCATTTG
CCATTTCTTCATAGTCCACAATTTCATGATTACCATCACTTGAAATTTTTTGAAAATTTT
GGATCAAATGGATTTATTGACAAATTTCATGGCACAAACAAGAAATTTGAAGAATCAATT
CAAGGATTAAGACATAGAACTTTGTGGTCTTTAAAATCATCAAATGAATTATTTCCAGAT
GATAAAGTTACTGAGAAAGAAAATTAA
>g12949.t27 Gene=g12949 Length=195
MTARIKKSFSDLDVNPLLYWLTLTYLITRTIEKFTGTSEFWSSFWNGIIDFFGMFTQKLC
EGEDDFNFKFLYTMIYLNIIYFGFGFLYVIMDITNKPKFMQKYKTQPEQHQPLDMNKFLP
ALMVVIFNQFILSGIAIYWTYRSGDWMLSTNIRETPTFTRLIAEIFGFGLTYEFVFYYSH
RLLHHKSIYQYIHKV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 1 | g12949.t27 | PANTHER | PTHR11863:SF26 | FATTY ACID HYDROXYLASE DOMAIN-CONTAINING PROTEIN 2 | 32 | 194 | 2.3E-27 |
| 2 | g12949.t27 | PANTHER | PTHR11863 | STEROL DESATURASE | 32 | 194 | 2.3E-27 |
| 6 | g12949.t27 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 11 | - |
| 14 | g12949.t27 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 12 | 31 | - |
| 10 | g12949.t27 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 32 | 69 | - |
| 13 | g12949.t27 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 70 | 91 | - |
| 8 | g12949.t27 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 92 | 117 | - |
| 12 | g12949.t27 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 118 | 141 | - |
| 9 | g12949.t27 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 142 | 160 | - |
| 11 | g12949.t27 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 161 | 179 | - |
| 7 | g12949.t27 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 180 | 195 | - |
| 4 | g12949.t27 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 68 | 90 | - |
| 3 | g12949.t27 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 119 | 141 | - |
| 5 | g12949.t27 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 161 | 183 | - |
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