GgaINT0072439 @ galGal4
Intron Retention
Description
NA
Coordinates
chr4:51120507-51121230:-
Coord C1 exon
chr4:51121088-51121230
Coord A exon
chr4:51120669-51121087
Coord C2 exon
chr4:51120507-51120668
Length
419 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
GCTGACATTTTTCTCTTTAGGGT
3' ss Score
10.01
Exon sequences
Seq C1 exon
GCCCTAGTGTTAATCAGCTTCGACAAGCAGAAGTAAAAATTATTAGCACTGCGGTTTGTAATAGACCACAAGTGTATGCTGGAGCAATAACACCAGGAATGTTGTGTGCTGGATACTTAGAGGGACGGGTGGATGCTTGCCAG
Seq A exon
GTAAGTCTCATCTTAAGTAAGAAGGAAATAGGGTGGGATGGAAAGTGACTTTTCCTAAAAATCAGAAATAATTAAGATTCTACCATGGTATCTCTTTTGTTTATGGGGTTCAAGACCTTAAGATGTAAATTAAGAGCTTCACTGCTTCTAGGTTGTGATCTGCACTTACATGCTTACTGTTGTTTTTTTATAGTATACTTTTGAGAGAATGCAGATGTAATGGTCTAGAATAGAAGAGACTGTGTTAGATACAGGCTATCAGCCCCTGTCTTCTCAGTACAGCATGCAGAGGTTAATTTATAGCTGTAATCTAGAGAAAAGTATCTGTCCATTGTAACATAACAATATGATGCTCTCTGCATTAGTGAAGTGAATGTTGTTTGCTTTTTGTTCCTGTCCGCTGACATTTTTCTCTTTAG
Seq C2 exon
GGTGATTCTGGTGGGCCACTGGTTCATGCAAATTCCAGAGGAATCTGGTATCTCGTGGGAATAGTGAGCTGGGGTGATGAATGTGGCAAGGCTGATAAACCAGGAGTGTACACACGAGTGACTGCATATCGAGACTGGATCGCTTCCAAAACAGGCATCTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011792:ENSGALT00000019237:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(20.6=100)
A:
NA
C2:
PF0008921=Trypsin=PD(20.2=85.2)
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:
GCCCTAGTGTTAATCAGCTTCGA
R:
AGATGCCTGTTTTGGAAGCGA
Band lengths:
303-722
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]