GgaINT0057955 @ galGal3
Intron Retention
Gene
ENSGALG00000005892 | SCUBE2
Description
NA
Coordinates
chr5:10462516-10463138:+
Coord C1 exon
chr5:10462516-10462641
Coord A exon
chr5:10462642-10463021
Coord C2 exon
chr5:10463022-10463138
Length
380 bp
Sequences
Splice sites
5' ss Seq
TTTGTATGC
5' ss Score
-0.42
3' ss Seq
AACATATATTTTCTTCCTAGTAA
3' ss Score
5.51
Exon sequences
Seq C1 exon
AAGGCATGAGCTGCATGAATAAAGATCATGGCTGTGCACACATCTGCAGAGAAACGCCCAAAGGAGGGGTTGCTTGTGAATGCCGACCAGGATTTGAGCTGTCCAAGAACCAGAGAAGCTGCATTT
Seq A exon
GTATGCAACATTCTGCATATGGTTATGGTTTTCCAAAGTAAACAGTGTCCTCTTTGCGGTGGTGTGGGATTTGATATGTTACAGCAAAACTGGTGTGACATGTCTCACGATTGCTTTTGGGGCTAAACCAGAATCAACAGCTTTGCAGGACGCTCTTGCACCAATCTATAATTTTCCAAAGAATACATAGTTTGGAAGTTGTGCCATCATTTACGTTCAGCTCCACGAGAGAACAGTGCACTGTTTGAGTCTCAGAGTTTTTGAGGAAGTGGACACAAGATAAGATGGTGTGTTGGATGGCCAGATGGAGACAAAATGGGGTGCTGTCTTTTAAAGGTGCTGGAAGTACTTGTGAAGTGTAACATATATTTTCTTCCTAG
Seq C2 exon
TAACCTGTAATCATGGAAATGGTGGCTGTCAACATACATGTGATGATGCTGATAATGGGCCTATTTGTGGATGTCACCCCAAGTACATCATGCATACGGATGGGAAAACCTGCCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005892:ENSGALT00000009480:5
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:
PF146701=FXa_inhibition=WD(100=86.0)
A:
NA
C2:
PF146701=FXa_inhibition=WD(100=90.0)
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:
ATGAGCTGCATGAATAAAGATCATGG
R:
CCAGGCAGGTTTTCCCATCC
Band lengths:
238-618
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]