General information for g6626.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Fatty acyl-CoA reductase wat.
Parent gene
- The parent gene g6626 is located on chr_2: 17853071..17855776 (+ 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_2 | g6626 | g6626.t1 | isoform | g6626.t1 | 17852039 | 17855203 |
| chr_2 | g6626 | g6626.t1 | exon | g6626.t1.exon1 | 17852039 | 17852168 |
| chr_2 | g6626 | g6626.t1 | cds | g6626.t1.CDS1 | 17852039 | 17852168 |
| chr_2 | g6626 | g6626.t1 | exon | g6626.t1.exon2 | 17852413 | 17852543 |
| chr_2 | g6626 | g6626.t1 | cds | g6626.t1.CDS2 | 17852413 | 17852543 |
| chr_2 | g6626 | g6626.t1 | exon | g6626.t1.exon3 | 17852614 | 17852862 |
| chr_2 | g6626 | g6626.t1 | cds | g6626.t1.CDS3 | 17852614 | 17852862 |
| chr_2 | g6626 | g6626.t1 | exon | g6626.t1.exon4 | 17852926 | 17853071 |
| chr_2 | g6626 | g6626.t1 | cds | g6626.t1.CDS4 | 17852926 | 17853071 |
| chr_2 | g6626 | g6626.t1 | exon | g6626.t1.exon5 | 17853242 | 17853417 |
| chr_2 | g6626 | g6626.t1 | cds | g6626.t1.CDS5 | 17853242 | 17853417 |
| chr_2 | g6626 | g6626.t1 | exon | g6626.t1.exon6 | 17853493 | 17853526 |
| chr_2 | g6626 | g6626.t1 | cds | g6626.t1.CDS6 | 17853493 | 17853526 |
| chr_2 | g6626 | g6626.t1 | exon | g6626.t1.exon7 | 17853952 | 17854000 |
| chr_2 | g6626 | g6626.t1 | cds | g6626.t1.CDS7 | 17853952 | 17854000 |
| chr_2 | g6626 | g6626.t1 | exon | g6626.t1.exon8 | 17854131 | 17854321 |
| chr_2 | g6626 | g6626.t1 | cds | g6626.t1.CDS8 | 17854131 | 17854321 |
| chr_2 | g6626 | g6626.t1 | exon | g6626.t1.exon9 | 17854413 | 17854532 |
| chr_2 | g6626 | g6626.t1 | cds | g6626.t1.CDS9 | 17854413 | 17854532 |
| chr_2 | g6626 | g6626.t1 | exon | g6626.t1.exon10 | 17854696 | 17854953 |
| chr_2 | g6626 | g6626.t1 | cds | g6626.t1.CDS10 | 17854696 | 17854953 |
| chr_2 | g6626 | g6626.t1 | exon | g6626.t1.exon11 | 17855116 | 17855203 |
| chr_2 | g6626 | g6626.t1 | cds | g6626.t1.CDS11 | 17855116 | 17855203 |
| chr_2 | g6626 | g6626.t1 | TTS | g6626.t1 | 17855775 | 17855775 |
| chr_2 | g6626 | g6626.t1 | TSS | g6626.t1 | NA | NA |
Sequences
>g6626.t1 Gene=g6626 Length=1572
ATGACGCCACCGTGCCAAACAAATAGTAGTGTTGACCTAAATATGAACGAGCCAAAAACT
GCTGATTCGCATTTTACCACCATCCAAAAGTTTTATAATGGAACCAATATATTTATCACA
GGTGGAACAGGATTTATGGGAAAAGTTCTCATCGACAAACTACTTCGTACATGTCCTGAT
ATTGAAAATATTTATTTGCTGATAAGAAAGAAAAAGGGCAAGGATATTCATACACGAATT
GAAGAGTTATTTGATGATCCGCTATTTGATAAACTTCGAGAAGCTGTGCCAAAGTTTCGT
CACAAAATTGTAATTATACCAGGAGATTGTTCAATTGCTGGCTTGGGTCTTTCACTGACT
GATAGACAAACGCTGATATCTAATATTGGCATCATCTTTCATGCTGCGGCAACGATCAAA
TTTGATGAAAATTTAAAACTTGCAGTTGATATTAATGTACATGGAACAAAAGACGTTATT
GAGCTTAGCAAAGAGATGAAACAATTAAAATCATTCGTGCATGTATCAACTGCATATTCC
AATTGTCACCTTGGACATGTTGAAGAAAAGTTTTACGATTATCCGATAGGATATGAAAAC
TTGGATAATATAATTTCAAAATTGGACGCACGTGCAATTGAAGAAGTAACACCAAAAATA
TTGGGTAAATGGCCAAACACCTACACACTTACAAAAGCTTTGGCAGAGGATTTAGTAAAA
AATGAGTGTGCGGGATTACCTGTAAGTGTGTTTAGACCTGCCATCATTACCTCAACTGCA
TCTGATCCAATAGCGGGTTGGATTGATAATTTATATGGTCCCACTGGTGTTGTTGCTGGC
GCTGGATCAGGTGTCTTAAGAACAATGCATTGCGACAGAAATATCAATGCGAATATTGTA
CCCGTCGATATGACGGTGAATGCATTGATTGTGTCAGCATATGATGTTGCAAGAAAAAAA
TCTGAGAAAAATTCGAATGAAAAGGAAGTTCATGAAATACCAGTTTATAATTATGTTTCA
TCCGTGCAAAATCCATTGAAATGGGGAGAATTTACGCAGCTCAACATGAAATATGGTTTC
AATTATCCATTCAGTAGTGCAATATGGTATATTTGCTTTTTTATGACAAAGTCTGCATTT
ATAAATAAGGTGTATACTCTATTTCTGCACATAATACCGGCTCTACTAATAGACTTTATG
ATTTTATGTATTGGAAAAAAACCGAGATTGCTTAAAACTTATAAAAAAATACATAAGTTT
GCAAATGTCATATCATTTTTTTGTACAAATGAGTGGACATTTACAAATGACAATGTGCAA
AAACTTTGGCGGAATCTCAATAGTGAGGATAAAATACTCTATCCTTTTGATATGACACCA
TTGAGTTGGGAGGAATACATCAGTCATTATATGATTGGAATGCGGATGTATTTGTTTAAA
GACGACCTTTCCAATGTTGAAGTTGCAAGAAAGAAATGGAGAAGACTATTTTGGCTACAT
CAAAGTGTGAAAGTTCTTTTCATCACTGCTTTTAGTTATCTGATGCTAATACTCTGTAGA
ACAATCATTTAA
>g6626.t1 Gene=g6626 Length=523
MTPPCQTNSSVDLNMNEPKTADSHFTTIQKFYNGTNIFITGGTGFMGKVLIDKLLRTCPD
IENIYLLIRKKKGKDIHTRIEELFDDPLFDKLREAVPKFRHKIVIIPGDCSIAGLGLSLT
DRQTLISNIGIIFHAAATIKFDENLKLAVDINVHGTKDVIELSKEMKQLKSFVHVSTAYS
NCHLGHVEEKFYDYPIGYENLDNIISKLDARAIEEVTPKILGKWPNTYTLTKALAEDLVK
NECAGLPVSVFRPAIITSTASDPIAGWIDNLYGPTGVVAGAGSGVLRTMHCDRNINANIV
PVDMTVNALIVSAYDVARKKSEKNSNEKEVHEIPVYNYVSSVQNPLKWGEFTQLNMKYGF
NYPFSSAIWYICFFMTKSAFINKVYTLFLHIIPALLIDFMILCIGKKPRLLKTYKKIHKF
ANVISFFCTNEWTFTNDNVQKLWRNLNSEDKILYPFDMTPLSWEEYISHYMIGMRMYLFK
DDLSNVEVARKKWRRLFWLHQSVKVLFITAFSYLMLILCRTII
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 16 | g6626.t1 | CDD | cd05236 | FAR-N_SDR_e | 36 | 358 | 4.36937E-132 |
| 17 | g6626.t1 | CDD | cd09071 | FAR_C | 388 | 479 | 7.11915E-40 |
| 8 | g6626.t1 | Gene3D | G3DSA:3.40.50.720 | - | 11 | 375 | 2.2E-79 |
| 3 | g6626.t1 | PANTHER | PTHR11011:SF60 | FATTY ACYL-COA REDUCTASE 2 | 26 | 516 | 1.9E-184 |
| 4 | g6626.t1 | PANTHER | PTHR11011 | MALE STERILITY PROTEIN 2-RELATED | 26 | 516 | 1.9E-184 |
| 1 | g6626.t1 | Pfam | PF07993 | Male sterility protein | 39 | 308 | 2.0E-80 |
| 2 | g6626.t1 | Pfam | PF03015 | Male sterility protein | 389 | 481 | 5.4E-33 |
| 10 | g6626.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 359 | - |
| 15 | g6626.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 360 | 381 | - |
| 11 | g6626.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 382 | 386 | - |
| 13 | g6626.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 387 | 405 | - |
| 9 | g6626.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 406 | 495 | - |
| 14 | g6626.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 496 | 518 | - |
| 12 | g6626.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 519 | 523 | - |
| 7 | g6626.t1 | SUPERFAMILY | SSF51735 | NAD(P)-binding Rossmann-fold domains | 27 | 314 | 6.45E-33 |
| 5 | g6626.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 384 | 406 | - |
| 6 | g6626.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 496 | 518 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0080019 | fatty-acyl-CoA reductase (alcohol-forming) activity | MF |
KEGG
Orthology
- This transcript has been annotated with K13356 (alcohol-forming fatty acyl-CoA reductase)
Pathway
- This transcript belongs to the following pathways
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