General information for g9674.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Very-long-chain (3R)-3-hydroxyacyl-CoA dehydratase.
Parent gene
- The parent gene g9674 is located on chr_1: 4535802..4536998 (+ 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 | g9674 | g9674.t3 | TSS | g9674.t3 | 4535584 | 4535584 |
| chr_1 | g9674 | g9674.t3 | isoform | g9674.t3 | 4535665 | 4536888 |
| chr_1 | g9674 | g9674.t3 | exon | g9674.t3.exon1 | 4535665 | 4535742 |
| chr_1 | g9674 | g9674.t3 | exon | g9674.t3.exon2 | 4535802 | 4536888 |
| chr_1 | g9674 | g9674.t3 | cds | g9674.t3.CDS1 | 4536118 | 4536888 |
| chr_1 | g9674 | g9674.t3 | TTS | g9674.t3 | 4537002 | 4537002 |
Sequences
>g9674.t3 Gene=g9674 Length=1165
ATGTCAATCAGTCCATTTGTTTATTGGGCTCAAACAGAAGATCAGATTTCTTTAAAAATT
GATCTTAAAGATGTCAAAGATTTCAACATAAAGAGTGACGAAGCAAAATTCAATTTCACA
GGAGTTGGAGTTGGCGCGAGAGGTTTGCAAGAATATAAATTTTCACTAGACTTGTTCAGT
GAAGTCAAATTTGAAGGAATAAAATCAATTAAGACTGACAACAAAGTTGATGTTTTCATA
CCAAAAAAGGAAAAAGGATTTTGGAATCGATTGGTAAAATTGAGAAAGAAACAAAAAATT
TAAATTTTTAATTCAAAAAAATTGTTTTTAGATTTGTCAACAGCAAAAGCCATCATGGTT
GAAAATTGATTTTGATAGATGGAAGTCAGAAGATATGGACGACGATGATGATGATGAGAA
ACCAAGGAATATAATGCAGGATTATCCAGACATGTTTGATCGATTGCAAAAAGAAGAACT
TGGATTTCGTAGAGAAAATTTCAAGAAAGTTTACTTAATTCTCTACAATTTATTCCAATT
TGTTGGTTTTACATATATTTTAGTCGTTATGGGAATTCGTTATTCACGTGATGGTGTTCA
TTCAATTCCTGGAACTTATGAGGCAGTAGGAAATGCTTTTAAATTTATTCAATTATTGCA
ATATTTAGAAGTGATGCATCCAATTTTTGGTTACACAAAGGGTGGTGCTTTAGTTCCTTT
CTTACAAGTCACAGGACGAAATTTCATTCTTTTTATTATGCTCGATTATGAGCCAAGAAT
GTTGACAAAGCCTGTCGTATTTTATTTATTCCTTGTATGGGCATCAATTGAGATTGTTCG
CTATCCATATTATCTTACACAATTGTTCAAATTTGAAATTGGTTTGCTCACTTGGTTACG
CTATTCATTATGGATTCCTCTTTATCCGCTTGGTGTTTTATGTGAAGGAATTATTATTTT
GAGAAATATTCCATATTTTGAAGAGACTAAAAGATTGTCAATGACACTGCCTAACAAATG
GAACTTTACTTTTGATATGCCGACTTTTCTTTATCTTTACATCAGTTTCCTAATTCTTCC
TGGTATAATTTTCATAATGTCTCATATGCAAAAAGTTCGAACCAAAAAACTTGGTGGACG
AAAGAAAAGCGCTAAATATGATTAA
>g9674.t3 Gene=g9674 Length=256
MDDDDDDEKPRNIMQDYPDMFDRLQKEELGFRRENFKKVYLILYNLFQFVGFTYILVVMG
IRYSRDGVHSIPGTYEAVGNAFKFIQLLQYLEVMHPIFGYTKGGALVPFLQVTGRNFILF
IMLDYEPRMLTKPVVFYLFLVWASIEIVRYPYYLTQLFKFEIGLLTWLRYSLWIPLYPLG
VLCEGIIILRNIPYFEETKRLSMTLPNKWNFTFDMPTFLYLYISFLILPGIIFIMSHMQK
VRTKKLGGRKKSAKYD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g9674.t3 | PANTHER | PTHR11035 | PTPLA DOMAIN PROTEIN | 36 | 252 | 4.8E-64 |
| 3 | g9674.t3 | PANTHER | PTHR11035:SF35 | VERY-LONG-CHAIN (3R)-3-HYDROXYACYL-COA DEHYDRATASE | 36 | 252 | 4.8E-64 |
| 1 | g9674.t3 | Pfam | PF04387 | Protein tyrosine phosphatase-like protein, PTPLA | 86 | 247 | 3.2E-44 |
| 10 | g9674.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 38 | - |
| 13 | g9674.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 39 | 61 | - |
| 11 | g9674.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 62 | 133 | - |
| 16 | g9674.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 134 | 152 | - |
| 8 | g9674.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 153 | 171 | - |
| 15 | g9674.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 172 | 195 | - |
| 12 | g9674.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 196 | 214 | - |
| 14 | g9674.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 215 | 235 | - |
| 9 | g9674.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 236 | 256 | - |
| 6 | g9674.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 39 | 61 | - |
| 4 | g9674.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 134 | 153 | - |
| 5 | g9674.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 173 | 195 | - |
| 7 | g9674.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 216 | 238 | - |
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