GgaINT0057956 @ galGal3
Intron Retention
Gene
ENSGALG00000005892 | SCUBE2
Description
NA
Coordinates
chr5:10463022-10464073:+
Coord C1 exon
chr5:10463022-10463138
Coord A exon
chr5:10463139-10463983
Coord C2 exon
chr5:10463984-10464073
Length
845 bp
Sequences
Splice sites
5' ss Seq
TGGGTCAGT
5' ss Score
4.68
3' ss Seq
TTCTCGTTCCTTGCTCATAGAGA
3' ss Score
7.97
Exon sequences
Seq C1 exon
TAACCTGTAATCATGGAAATGGTGGCTGTCAACATACATGTGATGATGCTGATAATGGGCCTATTTGTGGATGTCACCCCAAGTACATCATGCATACGGATGGGAAAACCTGCCTGG
Seq A exon
GTCAGTATATAGAGGAGAGGAGTAGCGTTTGCTGATGACCAGCTCAAGAGTGGTTTGATATTACTGCATGTCCATGACTAATGTTCCTCTTGCTAGTAGAGCTAGAAAGCGCCTAGGAATCCAAAGTTAAAAAACATGCTAGTGCATGAGTTGAGTGAGCTGGTTGGGTCCAGGCAATTTATGCTTCCCTATGTGAGTAGCTACCTCGGATTACTGCAGCCTGTAATTAGCACTGGTCCCTTTGAAACACAAAGCTTGTCACTAACCAAAGAAGATTCCCTTCTTTCTAGGATTTTCAGATCAAGTTTCTTGAACAGCATGAGCCAGAGAGTATAACCAAAGCAGTACGTATGTGAAAACCAGAACTCTGAATTCAATTACAGGACAGTTTTTGAAAAGCAGTTATCCAGTAAGGAAAGTACTTGAGACCTATAAACCAGTCTCTGGGAGACTTTGTTGCCTCTTGATTGAAATCAATAGCTCAGGCAAAACTGCTTGTCTTTGCATTAGTCTGTAATAGATGATGACAGCATGATCGTAACAGAGCAGCTCATGACAGTTCAGTTAGTTCTTTCATCTTGTTACTGTTCACCGCATCAGTACTGCATGTTCTGTTTACCAAACTTGAGAATACTGAGACAGGCACGAGTTGCATGGAAGCAACCACATATTCCTATGGATTTGGCTGAAGAGTCTTTAAAAATTTGATTTCTGCCTAATTAGGCCCAACTGTCTCTGATAATTCAGTGCGTGATGTTGCCATTTTCTTGTCTGTACATATGGATATGAGGTTTCTGGTCAGGGCATATTTGCTCATCTGCTTTTTTCTCGTTCCTTGCTCATAG
Seq C2 exon
AGAGGGAAGAGGCTGCTGTTGAAATTCCAGAGGGCAACACTACAGCAGGAGCTGATGTGGACAAGCGGGTTAAGCGACGGTTACTCATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005892:ENSGALT00000009480:6
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=0.355
Domain overlap (PFAM):
C1:
PF146701=FXa_inhibition=WD(100=90.0)
A:
NA
C2:
NO
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:
AACCTGTAATCATGGAAATGGTGG
R:
CCATGAGTAACCGTCGCTTAACC
Band lengths:
206-1051
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]