General information for g6092.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Alpha-1,3-fucosyltransferase C.
Parent gene
- The parent gene g6092 is located on chr_2: 14084573..14086066 (- 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 | g6092 | g6092.t1 | isoform | g6092.t1 | 14084573 | 14086066 |
| chr_2 | g6092 | g6092.t1 | exon | g6092.t1.exon1 | 14084573 | 14085125 |
| chr_2 | g6092 | g6092.t1 | cds | g6092.t1.CDS1 | 14084573 | 14085125 |
| chr_2 | g6092 | g6092.t1 | exon | g6092.t1.exon2 | 14085188 | 14085236 |
| chr_2 | g6092 | g6092.t1 | cds | g6092.t1.CDS2 | 14085188 | 14085236 |
| chr_2 | g6092 | g6092.t1 | exon | g6092.t1.exon3 | 14085292 | 14085473 |
| chr_2 | g6092 | g6092.t1 | cds | g6092.t1.CDS3 | 14085292 | 14085473 |
| chr_2 | g6092 | g6092.t1 | exon | g6092.t1.exon4 | 14085537 | 14086066 |
| chr_2 | g6092 | g6092.t1 | cds | g6092.t1.CDS4 | 14085537 | 14086066 |
| chr_2 | g6092 | g6092.t1 | TSS | g6092.t1 | 14086107 | 14086107 |
| chr_2 | g6092 | g6092.t1 | TTS | g6092.t1 | NA | NA |
Sequences
>g6092.t1 Gene=g6092 Length=1314
ATGTCAAGATCGGTAAAATTTTCTGATAAAATTAAACTTGTGCCAGACAATGATGTGCAC
CGATCATATTCACTACCAAAAAGAAAATTGAAATTTTTTTTCTTCCTCGTATTAATGACA
ATTATAATTTTGTTTTTTTGCACATCACATCGAAACGTGTTACCAGAAAAACTCACTTTT
TTCAATGAATCACATAGTGAACAAGTTTTCACTGATAACGAAAACGATACTTATATAGAT
TATAATATCAGTGGAGAAATGAGCGTAAAAAATTCAACGAAAAATATTCTCTTTTGGACG
AGATTTTTTAATAATACAGATTGGTATACGGGTGAAGAAGAAGCCGGTGAAGAAGTGTTA
AAGTCAGTTCAATGTCCTGTTACAAATTGCTTTTTCACACACAATAAAGAATTATTGGAT
GGCGATATTACTAAATTTGATGCAATCGCATTTCACGGTCCTGAATTTAGAACTAAACCA
TTGCCAACTGTAAGAAGTCCAGATCAACTTTACATTTTTGTATCATTAGAATCTCCAACT
GCAGTTATAGATGATCTAACTAAATATAAAGATTTTTACAATCTCACAATGACTTATAGA
CTTGATTCAGATATTGAATTCGATTATGGGAAAGTCATAAGTATCGATACAGAAAAAGTT
ATTGCACCCTCAAAAAATCCAAATTGGCATGATATTGATGAAGACTTTTATGACGAAAAA
CTGATGGAAATGTTTAAGAAAAAGAAGTCAAATATAGCATGGTTTGTTTCAAATTGTTTC
ACACGCTCAAGACGTTCTATTTTAGTCAAGAAAATGCAAAACTTAACAACTGTGGATATT
TATGGTCAATGTGGTCCACTTAAGTGCAAAGTTGATACACAAGAATGTCTAGACATGCTA
ACTAGTGACTATAAATTTTATTTATCATTTGAGAACTCATTATGCAAGGATTACATCACA
GAAAAAATTTATCGACCTCTAACTCAATATGTTATACCAATTGTATTTAATGGTGGCAAC
ACAACATTATTTGCTCCACCTAAATCATTTATTAATGCTAATGATTATGATACTGTGGAA
GATTTAGTTAATTATTTAGAGTTTTTGAATAATAATCCTAAAGAGTATATAAAATACTTT
TGGTGGAAGAGATATTACTATATTAAATCACATCCAGTTTATCAATACACTCTCTGTGAA
CTTTGTACAAAACTCAATGATGAAACATTCATGAAGTCATCACATCGTTATCCTGATATA
AATGCATGGTACAAAAATGACATGTGTGATCAGAATGCTCATATAAAGTTTTAG
>g6092.t1 Gene=g6092 Length=437
MSRSVKFSDKIKLVPDNDVHRSYSLPKRKLKFFFFLVLMTIIILFFCTSHRNVLPEKLTF
FNESHSEQVFTDNENDTYIDYNISGEMSVKNSTKNILFWTRFFNNTDWYTGEEEAGEEVL
KSVQCPVTNCFFTHNKELLDGDITKFDAIAFHGPEFRTKPLPTVRSPDQLYIFVSLESPT
AVIDDLTKYKDFYNLTMTYRLDSDIEFDYGKVISIDTEKVIAPSKNPNWHDIDEDFYDEK
LMEMFKKKKSNIAWFVSNCFTRSRRSILVKKMQNLTTVDIYGQCGPLKCKVDTQECLDML
TSDYKFYLSFENSLCKDYITEKIYRPLTQYVIPIVFNGGNTTLFAPPKSFINANDYDTVE
DLVNYLEFLNNNPKEYIKYFWWKRYYYIKSHPVYQYTLCELCTKLNDETFMKSSHRYPDI
NAWYKNDMCDQNAHIKF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g6092.t1 | Gene3D | G3DSA:3.40.50.11660 | - | 176 | 398 | 5.5E-38 |
| 3 | g6092.t1 | PANTHER | PTHR11929:SF217 | ALPHA 1,3 FUCOSYLTRANSFERASE-RELATED | 63 | 432 | 5.7E-101 |
| 4 | g6092.t1 | PANTHER | PTHR11929 | ALPHA- 1,3 -FUCOSYLTRANSFERASE | 63 | 432 | 5.7E-101 |
| 2 | g6092.t1 | Pfam | PF17039 | Fucosyltransferase, N-terminal | 92 | 210 | 8.1E-24 |
| 1 | g6092.t1 | Pfam | PF00852 | Glycosyltransferase family 10 (fucosyltransferase) C-term | 248 | 424 | 3.4E-57 |
| 8 | g6092.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 29 | - |
| 10 | g6092.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 30 | 46 | - |
| 9 | g6092.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 47 | 437 | - |
| 6 | g6092.t1 | SUPERFAMILY | SSF53756 | UDP-Glycosyltransferase/glycogen phosphorylase | 90 | 425 | 3.77E-80 |
| 5 | g6092.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 32 | 54 | - |
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:0016020 | membrane | CC |
| GO:0008417 | fucosyltransferase activity | MF |
| GO:0006486 | protein glycosylation | BP |
KEGG
Orthology
- This transcript has been annotated with K20151 (alpha(1,3/1,4) fucosyltransferase)
Pathway
This gene does not belong to any 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.
