GgaINT0124654 @ galGal4
Intron Retention
Gene
ENSGALG00000003340 | GBGT1
Description
globoside alpha-1,3-N-acetylgalactosaminyltransferase 1 [Source:RefSeq peptide;Acc:NP_001025854]
Coordinates
chr17:6833701-6835802:-
Coord C1 exon
chr17:6835767-6835802
Coord A exon
chr17:6833836-6835766
Coord C2 exon
chr17:6833701-6833835
Length
1931 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGT
5' ss Score
9.72
3' ss Seq
TAACATTCCCCCTTTTTCAGGCG
3' ss Score
9.36
Exon sequences
Seq C1 exon
ATTATTTTATCAGCAACCAAGAGTGCTGGCTCCAAA
Seq A exon
GTAAGTTTCATCGTTTGCTGTTTGTGTCTTGGTCCTGCATTTTACAGAGCTGCTGGCTTTGGTTTGGGTGCTTTGTGGCTCTTGGACATTCAAAGATCTGCTGTTGGGAAGAGACTGTTCTCAGAGCAGTCATGCACTGGCATAGGCTGCCCAGGGGAGTGGTGCAGTTATGTCTCCGGATGTGTTTGGAGGATGGGGAGGTGTGATACTTATGGGACACAGCTTAGTGGGCAGTGCTGGTAGTCTGTAGATGGTTGGACTGGGTGATCTTAGAGGTCTTCCCCAACCTTAATGGCTCTGGGATCCTCCTCACTCATCCCACGGGGAGCCCAGCTGTGTGGGTATGCCTGCAGCTGCCTATGCTCCTCTAAGATTGGTCTCAGTCCAATAGAAGTGTATACTTCTATACCTACTGTATATTCCTAATTAATACATTAGCACAGCCAGTCCATCTATGTATTGCTGCTATGGACTCCGAGATGAGAAATAAATCTGTTTTCTATCTACTGTAACTTCTGGAGCTGCACTGTAGCTTTAACCAGCTGCGGGAGAGCTCTGAGTCCATTTCAGGACAAAACCAAGCAGGTGACTTGTATGACCTCCAGCAACGCTTTCAGCCAACCTGCTGGATCTTACCCTGGAACAAATTACGGACAAGTCTGCCTGGGAAGCAGTCAGAGCAGTGAGCTTGAACAGACAGGGAGGGTTTGGGGCAGCAGCAGTGAGACGTGGCTTAGGCAGTGCTCCTGTCAGCTCACGTTCATCAGCAGTCTCCTCTGAGCCACCTCCCATGGCCTGACTCTTATCTCCAGCAGCTCTGCTTCGTCAGCTGTTGTTAATAGGCACAGCCTGCAGGGAGGCTTTACCTGGCTGTTGTGATAGGCTGTGCCGCAGCTGAACGTTTCACACCTCCAGACTGGAATGAATTAACGTGCACAGTCAGCTGCTGTGTGCTGGAGTAGGTGAGAACTGCGTAGCTTTGAGTGCACTGCTTCCTAAGAGGAGACGTCTGGGTGCACTGAGTGGGTGCACACCTTCATTCTGTAATTGTGTGTGTTACTATAGGAGGGAGTTCGGTCTTTCTTCAGCTGCCATTGCCTTGGGAGCATGACAGGTGGGAGACTGCTCTGGTCTCAAAGTGTGACCCTTTACCATGTGGCCATCACCATCTTCATTAGCAGAGTGACGCAGATTGGGGCCCAAGGGAATGTGAACAGGCGAGGGGAAGGCTGATGTTGTAAATAACATTCTGCTTAAAAAATCAAAAAGGAGGGAAAGAAGCCCTGAAATGAGGGAAGAAAGTGGAAATAGCATTGTATAACAGTCGCTGGGTATAGCCAGGCTCTGCTATTCAACGCTTCCACTTCCCCCACTCAGGAGATCAAGGATTTTCTGTAGCTGTTGCATATTTGAATGCCAGTTCATATAGAGAATCTTAGATTCTTTCTGAATATGTTAGAGCTATATATAAATAGTGAGGAAAACAACTGTCATGCCACAAGTTGTGTTTTAATAATACCACAGCCATGGAGCATATTTCTATAACGATTTTTATATTATTACTTGCATTTTAATCCACTTGTAGCCATGTGCACTGGAGTGATAACGAATGTGCGTAGCTTCCCATTCTGTGAGTCCCGAGGTCATTAAACTCCCCTCAGCAGATAAGTCCTGTAGGCTTAAATGAGATTTCAGTGTGTCATCACTTCTTTTTTTTTTTTTTTTTTTTTTGCTAATTCCATAAACAGTGCTGAATTTCAACCCAGGAGCTGAAATCTCCATGCTGTATGACATTAACAGCATGGGGAAAGAGATCCGAACGCAGTACCATACATAAGAAGTCAATGCTGATGTAGTCTCCAGTGTTTCTTCCCCATTGGCCTGAAACCAAAGGGAACGGTCACGTTTTGTTAACATTCCCCCTTTTTCAG
Seq C2 exon
GCGTCAGGATGTGCTAACAGTCACACCATGGTTGGCCCCCATCGTTTGGGAAGGCACCTTCAGCCCTGAGATCCTGGACAGTGCCTACATGCCACTGAATCTCACCATAGGGGTGACAGCCTTTGCCGTTGGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003340:ENSGALT00000005285:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF034148=Glyco_transf_6=FE(3.6=100)
A:
NA
C2:
PF034148=Glyco_transf_6=FE(13.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]