GgaINT0137481 @ galGal4
Intron Retention
Description
NA
Coordinates
chr23:4318033-4318816:-
Coord C1 exon
chr23:4318738-4318816
Coord A exon
chr23:4318286-4318737
Coord C2 exon
chr23:4318033-4318285
Length
452 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGG
5' ss Score
8.92
3' ss Seq
CTTTTTTTATTTTATTTTAGCTC
3' ss Score
10.02
Exon sequences
Seq C1 exon
GAGTACGGCCAACAGCCAAAAACTCAGGAAGGGGAGCTGAAAATCAGTGCTGTGTTTTCAGTCAGTGGCAGTCCTCTTG
Seq A exon
GTAAGGAACAGGCAAGACTTAACTTTATTTAAATCTATAAAATGCATCACCTCTGCAAATAGCCTTGCAGTTTATTCTGTGAAAATAAGTTATGTTTGCTATGTCTAACCCCAGTAGTAAAAACAAAAAAGAACTTGTTTTGTTTTAGAGGTGATGAAAATCACAGACTGAGAAACAATTGTATTTTTGAGGCAAGGGAGAACTGGATGTGAAAGCAGTGTTAAAAGTGCACTCTCATTCTTAAGAGCAGTTGAAACAATCTACTCTGCAGAAAACCAGCACAGGGCATGTATTACAGAGAGTTCCTCTGCTGTTTAGTTCTCCCTTAGACCCTGATGATCCCAATGAAGCCATAAGCTTTATGCTTGCCCCCTGAGCATAAGTAAATTATGTGTAATACGTATCCTAACAGCTACTCTGTTTTTTCTCTCTCTTTTTTTATTTTATTTTAG
Seq C2 exon
CTCCACAGCTGTCATCAGGTTTCCAGCCTGCTGTGGCATCCTCTGGCATGAGTAAAATGCTTCCTTCAGTTCCAGGCACAGCTGTTCGGGTTTCCTGTTCTGGCTGTAAAAAAATCCTCCAGAAGGGGCAGACCGCATACCAGAGGAAAGGCTCTACCCAGCTCTTCTGCTCCACACTGTGCCTCACTGGATACACCGTTCCAGCTTGTCGCCCACCAGCTTCCACCAAGAAAACCTGCTCAAGCTGCTCGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002499:ENSGALT00000003942:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.444 A=NA C2=0.106
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF064679=zf-FCS=WD(100=48.2),PF064679=zf-FCS=PU(28.9=15.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCAACAGCCAAAAACTCAGG
R:
AGCAGCTTGAGCAGGTTTTCT
Band lengths:
321-773
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]