Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Alpha-1,3-fucosyltransferase C.

Parent gene

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 g14043 g14043.t2 TSS g14043.t2 34288420 34288420
chr_1 g14043 g14043.t2 isoform g14043.t2 34288755 34289481
chr_1 g14043 g14043.t2 exon g14043.t2.exon1 34288755 34289161
chr_1 g14043 g14043.t2 cds g14043.t2.CDS1 34288755 34289161
chr_1 g14043 g14043.t2 exon g14043.t2.exon2 34289227 34289481
chr_1 g14043 g14043.t2 cds g14043.t2.CDS2 34289227 34289413
chr_1 g14043 g14043.t2 TTS g14043.t2 34290362 34290362

Sequences

>g14043.t2 Gene=g14043 Length=662
ATGAAAATTATTCGAAGAACTTCATTGATTCTGTTGCTTATGACATCAACATTTTTGTTC
GCATTTCATCTAATTAACAATTATGTTTTCGAATGGTCAATTGCAAGATATAAATTGATT
GAATTAAAAAAAGAATTGACGAGTGATCGTGAGAAATTTTTTGTACTCTTTTGGACTAAA
TTTTTTGATATTCCATATTGGAATATGGGCAATGAAACAAATGGACCCGAATATTTAGAT
GAAATTAATTGCCCTGTCAATAATTGTGTCTTTACTCATAATAAAGAACTTATTGATCCA
ATTTATTATTATGATGCGATAGTTTTTCATGGAGCACAATCATGGGGTTTTATGGACTTG
CCTGCTATAAGAAGTACTCATCAACTTTACGTATTTGCATCTCAAGAATCACCTGCAGAA
ACTAAGCACAATTTAGTACTCGATGATGAATTTTATAATCTAACCATGAGTTATCGATTA
GATTCAGAAATTTTATGGAGTTATGCACGAATTTTTGATATTCAAACTGGACAATTTATT
GCGCCATCAAAGAATGCTAACTGGCAGCAACCGGAAAGAGTTGAAGGTGTGTAAATTTGT
TATGAATCACCATTAATTATGTGGCTCACTTCAATTTTGTTTATTTTTCTTCTTTACGCA
GT

>g14043.t2 Gene=g14043 Length=197
MKIIRRTSLILLLMTSTFLFAFHLINNYVFEWSIARYKLIELKKELTSDREKFFVLFWTK
FFDIPYWNMGNETNGPEYLDEINCPVNNCVFTHNKELIDPIYYYDAIVFHGAQSWGFMDL
PAIRSTHQLYVFASQESPAETKHNLVLDDEFYNLTMSYRLDSEILWSYARIFDIQTGQFI
APSKNANWQQPERVEGV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g14043.t2 PANTHER PTHR11929:SF217 ALPHA 1,3 FUCOSYLTRANSFERASE-RELATED 22 189 5.6E-27
3 g14043.t2 PANTHER PTHR11929 ALPHA- 1,3 -FUCOSYLTRANSFERASE 22 189 5.6E-27
1 g14043.t2 Pfam PF17039 Fucosyltransferase, N-terminal 53 168 5.7E-23
7 g14043.t2 Phobius SIGNAL_PEPTIDE Signal peptide region 1 27 -
8 g14043.t2 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 8 -
9 g14043.t2 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 9 22 -
10 g14043.t2 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 23 27 -
6 g14043.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 28 197 -
5 g14043.t2 SUPERFAMILY SSF53756 UDP-Glycosyltransferase/glycogen phosphorylase 49 182 2.57E-21
4 g14043.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 7 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 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