General information for g10856.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Glycoprotein 3-alpha-L-fucosyltransferase A.
Parent gene
- The parent gene g10856 is located on chr_1: 12300003..12302406 (- 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 | g10856 | g10856.t1 | TTS | g10856.t1 | 12299019 | 12299019 |
| chr_1 | g10856 | g10856.t1 | isoform | g10856.t1 | 12300003 | 12302406 |
| chr_1 | g10856 | g10856.t1 | exon | g10856.t1.exon1 | 12300003 | 12300067 |
| chr_1 | g10856 | g10856.t1 | cds | g10856.t1.CDS1 | 12300003 | 12300067 |
| chr_1 | g10856 | g10856.t1 | exon | g10856.t1.exon2 | 12300124 | 12300212 |
| chr_1 | g10856 | g10856.t1 | cds | g10856.t1.CDS2 | 12300124 | 12300212 |
| chr_1 | g10856 | g10856.t1 | exon | g10856.t1.exon3 | 12300334 | 12300496 |
| chr_1 | g10856 | g10856.t1 | cds | g10856.t1.CDS3 | 12300334 | 12300496 |
| chr_1 | g10856 | g10856.t1 | exon | g10856.t1.exon4 | 12300580 | 12300598 |
| chr_1 | g10856 | g10856.t1 | cds | g10856.t1.CDS4 | 12300580 | 12300598 |
| chr_1 | g10856 | g10856.t1 | exon | g10856.t1.exon5 | 12300666 | 12300725 |
| chr_1 | g10856 | g10856.t1 | cds | g10856.t1.CDS5 | 12300666 | 12300725 |
| chr_1 | g10856 | g10856.t1 | exon | g10856.t1.exon6 | 12300806 | 12301109 |
| chr_1 | g10856 | g10856.t1 | cds | g10856.t1.CDS6 | 12300806 | 12301109 |
| chr_1 | g10856 | g10856.t1 | exon | g10856.t1.exon7 | 12301289 | 12301884 |
| chr_1 | g10856 | g10856.t1 | cds | g10856.t1.CDS7 | 12301289 | 12301884 |
| chr_1 | g10856 | g10856.t1 | exon | g10856.t1.exon8 | 12302070 | 12302187 |
| chr_1 | g10856 | g10856.t1 | cds | g10856.t1.CDS8 | 12302070 | 12302187 |
| chr_1 | g10856 | g10856.t1 | exon | g10856.t1.exon9 | 12302321 | 12302406 |
| chr_1 | g10856 | g10856.t1 | cds | g10856.t1.CDS9 | 12302321 | 12302406 |
| chr_1 | g10856 | g10856.t1 | TSS | g10856.t1 | 12302709 | 12302709 |
Sequences
>g10856.t1 Gene=g10856 Length=1500
ATGAGAATTCCAAAATTTTCGCTAAAAAGATGTTTCTTCTTAATAGTCATTCTATGTGCC
CTTCTAGTTTTTGTGATAAATTTCAGAGAAAAAGAATTATGGCATAGCAAAATTTCCATA
CCAACCACACATCATCATCAACATCAACAACAGCAACTGCATCAAAATTATGAAAATAGC
AATGAAATACCGGAAGTCATTGATAATCATGAACAGCCAAAAAAATTGGTGACAACAGCT
TCTTCAATTGTTGAGCAAAAAAATGTGATTGATGATAATAATATTAATAATGCGATTGAA
AATGATAAGAAGCAAGAAATTGAAAGTGATGACTCGACAATGTCATCTCGTCCATGGTAT
TTTACGAATGGTGAAAGATACCCAAAACCAGCGAAAATCAATAAAAAGACTCAAAAGCGT
TTAGCCAAAATACAAGTACATGAAGACACTCGAAGTGATCGAATTACGAATCAATTGATG
TTTGTACCGCCTAATTATGAAGAAATTAAAAATGAGGGTCGACTAAAAACTATTCTACTT
TATAATGGTCTCGGGCCATGGTCTGTAAAGCAAGGTCGAAGCTTATTTACTGCTTCAAAA
TGTCCAGTTGATACATGTACAATCACACAAAATCGTGATAGAGCCAAAGATGCTGATCTC
ATACTTTATAAAGATCATTACATTCCAACGGGGGTTCAAAAACATCCAACACAACTTTAT
ATGCTTTATTTTTTGGAATGTCCATATCATACACAACATATAAAGTTTCCCGATGTCTTT
AATTGGACAGCAACTTACAGACGAGATTCCGACATTGTGGCACCATATGAGAGTTGGCAA
TATTATGATCCAAAAGTGACGCAAATTGAGCAAGATCGAAATTATGCACAGAATAAAACT
AAAAAAGTCGCGTGGTTTGTTAGTAATTGTTCAGCTCGTAATAATAGATTGAATTATGCT
CATGAGCTTGGAAAATATATACAAGTTGATATTTATGGAGCATGTGGAAATTTCAAATGT
TCTCGATCAAATGCTGAGAAATGTTTTGATCTTCTTGATCGCGATTATAAATTTTATTTA
GCATTTGAAAATTCTAATTGTAAGGACTACATTACGGAGAAATTCTTTGTTAATGGTCTC
ACGAGAAATATTTTGCCAATTGTGATGGGCGCACGTCCAGAAGATTATGAAATGAGTTCA
CCACAACGATCTTATATTCATGTCGATGAATTTAGCTCTGCCAAAGAATTAGCTGATTAT
TTGCATTTATTAGACAAAAATGATGAACTTTATAACTCATATTTCAAATGGAAAAACACG
GGACAGTTTATAAATACATATTTCTGGTGTCGTGTCTGTTCAATGTTGCATGACGAAGAT
TCACTTAAGCAGCCAAAATGGTATGAAGATATCAACGAATGGTGGAGAGGACAAGGAGTT
TGTACCAATGGTAGCTGGAGAAAATTTCAGGCTAGAAAAGAAACAATGTCGGATGACTAG
>g10856.t1 Gene=g10856 Length=499
MRIPKFSLKRCFFLIVILCALLVFVINFREKELWHSKISIPTTHHHQHQQQQLHQNYENS
NEIPEVIDNHEQPKKLVTTASSIVEQKNVIDDNNINNAIENDKKQEIESDDSTMSSRPWY
FTNGERYPKPAKINKKTQKRLAKIQVHEDTRSDRITNQLMFVPPNYEEIKNEGRLKTILL
YNGLGPWSVKQGRSLFTASKCPVDTCTITQNRDRAKDADLILYKDHYIPTGVQKHPTQLY
MLYFLECPYHTQHIKFPDVFNWTATYRRDSDIVAPYESWQYYDPKVTQIEQDRNYAQNKT
KKVAWFVSNCSARNNRLNYAHELGKYIQVDIYGACGNFKCSRSNAEKCFDLLDRDYKFYL
AFENSNCKDYITEKFFVNGLTRNILPIVMGARPEDYEMSSPQRSYIHVDEFSSAKELADY
LHLLDKNDELYNSYFKWKNTGQFINTYFWCRVCSMLHDEDSLKQPKWYEDINEWWRGQGV
CTNGSWRKFQARKETMSDD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g10856.t1 | Gene3D | G3DSA:3.40.50.11660 | - | 240 | 451 | 7.4E-44 |
| 3 | g10856.t1 | PANTHER | PTHR11929:SF145 | GLYCOPROTEIN 3-ALPHA-L-FUCOSYLTRANSFERASE A | 135 | 481 | 8.0E-84 |
| 4 | g10856.t1 | PANTHER | PTHR11929 | ALPHA- 1,3 -FUCOSYLTRANSFERASE | 135 | 481 | 8.0E-84 |
| 2 | g10856.t1 | Pfam | PF17039 | Fucosyltransferase, N-terminal | 175 | 276 | 7.4E-18 |
| 1 | g10856.t1 | Pfam | PF00852 | Glycosyltransferase family 10 (fucosyltransferase) C-term | 299 | 475 | 7.4E-61 |
| 10 | g10856.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 27 | - |
| 11 | g10856.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 10 | - |
| 12 | g10856.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 11 | 22 | - |
| 13 | g10856.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 23 | 27 | - |
| 9 | g10856.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 28 | 499 | - |
| 6 | g10856.t1 | SUPERFAMILY | SSF53756 | UDP-Glycosyltransferase/glycogen phosphorylase | 158 | 477 | 3.77E-93 |
| 7 | g10856.t1 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 10 | - |
| 5 | g10856.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 12 | 29 | - |
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 K00753 (glycoprotein 3-alpha-L-fucosyltransferase)
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.
