Gene loci information

Transcript annotation

  • This transcript has been annotated as Alpha-1,6-fucosyltransferase.

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_4 g15764 g15764.t1 TTS g15764.t1 6701161 6701161
chr_4 g15764 g15764.t1 isoform g15764.t1 6701526 6702940
chr_4 g15764 g15764.t1 exon g15764.t1.exon1 6701526 6701612
chr_4 g15764 g15764.t1 cds g15764.t1.CDS1 6701526 6701612
chr_4 g15764 g15764.t1 exon g15764.t1.exon2 6701676 6701888
chr_4 g15764 g15764.t1 cds g15764.t1.CDS2 6701676 6701888
chr_4 g15764 g15764.t1 exon g15764.t1.exon3 6701981 6702259
chr_4 g15764 g15764.t1 cds g15764.t1.CDS3 6701981 6702259
chr_4 g15764 g15764.t1 exon g15764.t1.exon4 6702314 6702940
chr_4 g15764 g15764.t1 cds g15764.t1.CDS4 6702314 6702940
chr_4 g15764 g15764.t1 TSS g15764.t1 NA NA

Sequences

>g15764.t1 Gene=g15764 Length=1206
ATGAACGATGGTTATGAAGCATTCCGTCATAAAGAATCACAAGCACTCAGTGATCTCGTC
CAAAAGCGCTTTCATTATCTTCAAAATCCATCAGACTGTTCAACAGCACGAAAATTAGTT
TGTAAAATAAACAAAGGCTGTGGCTTAGGATGTCAGCTGCATCATATTGTTTACTGTTTT
ATTATGGCTTATGCAACAGAAAGAACATTAATTTTAAAATCAAAAGGTTGGCGATATCAT
AAAAATGGTTGGGAAGAAATCTACATGCCAGTTAGTGAAACTTGTCTTGATAGTGAAGGT
GAAACACAAGGAACTTGGCCATCAACAGACGTACAAGTATTGACAGTGCCAATTATTGAC
TCTCTTAATCCACGTCCACCATATTTACCACTAGCTATTCCAGCAGATTTAGCACCAAGA
TTAATAAGAATTCATGGTGATCCAATTGCATGGTGGATTGGACAACTTTTAAAATATATT
TTAAAACCACAACCAGAAACAGCAGAAATGTTAGAAAATGGTAAGAATAAACTTGGATTC
AAGAAACCAATTGTTGGCGTTCATGTGAGAAGAACTGACAAAGTCGGTACTGAGGCTGCT
TTTCATAGTCTTGATGAATACATGAAGGCAGTTGATGATTATTATGATCAACGAGAAATG
GTCGAAAGAATCGACAAACGAAGAGTTTATATAGCAAGTGATGATCCAAAAGTCATTGAT
GAAGCTAGAAGAAATTATCCACAATATGAAGTGATAGGAGATCCAGAAATTGCAAAACAT
GCAGCTGTATCAACAAGATACACAGACACATCACTAAATGGCATCATGTTAGACATTGAT
TTACTCTCAAAGAGTGATTTTCTCGTTTGTACTTTTAGTAGTCAAGTTTGTAGGGTTGCT
TATGAGATAATGCAATCAATGTATCCTGATGCCAGTAGTAGATTTAAGTCACTAGATGAC
ATTTATTATTATGGAGGTCAAAATGCACATAATGTGATAAGTGTCATGGACCATCAACCA
AAGAGTACTGATCAAATTTCAATGAAAACTGGTGATTTAATTGGAATTGCCGGCAATCAT
TGGAATGGTTTTTCAAAAGGCAAAAATATTAGAAATAATCAAAATGGACTATTTCCATCA
TTTAAAGTAAATAATAAAGTTGAAGTTGCAGATTTTCCAACATACAGTCACATCGATGAG
AATTAA

>g15764.t1 Gene=g15764 Length=401
MNDGYEAFRHKESQALSDLVQKRFHYLQNPSDCSTARKLVCKINKGCGLGCQLHHIVYCF
IMAYATERTLILKSKGWRYHKNGWEEIYMPVSETCLDSEGETQGTWPSTDVQVLTVPIID
SLNPRPPYLPLAIPADLAPRLIRIHGDPIAWWIGQLLKYILKPQPETAEMLENGKNKLGF
KKPIVGVHVRRTDKVGTEAAFHSLDEYMKAVDDYYDQREMVERIDKRRVYIASDDPKVID
EARRNYPQYEVIGDPEIAKHAAVSTRYTDTSLNGIMLDIDLLSKSDFLVCTFSSQVCRVA
YEIMQSMYPDASSRFKSLDDIYYYGGQNAHNVISVMDHQPKSTDQISMKTGDLIGIAGNH
WNGFSKGKNIRNNQNGLFPSFKVNNKVEVADFPTYSHIDEN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g15764.t1 CDD cd11300 Fut8_like 3 324 0.0000000
9 g15764.t1 CDD cd11792 SH3_Fut8 331 385 0.0000000
4 g15764.t1 Gene3D G3DSA:3.40.50.11350 - 4 331 0.0000000
5 g15764.t1 Gene3D G3DSA:2.30.30.40 SH3 Domains 332 386 0.0000000
2 g15764.t1 PANTHER PTHR13132 ALPHA- 1,6 -FUCOSYLTRANSFERASE 4 396 0.0000000
1 g15764.t1 Pfam PF14604 Variant SH3 domain 336 383 0.0000002
6 g15764.t1 ProSiteProfiles PS51659 Glycosyltransferase family 23 (GT23) domain profile. 35 318 120.9590000
7 g15764.t1 ProSiteProfiles PS50002 Src homology 3 (SH3) domain profile. 327 388 13.5390000
3 g15764.t1 SUPERFAMILY SSF50044 SH3-domain 325 383 0.0000001

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:0005515 protein binding MF

KEGG

Orthology

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.

Raw TPM values