GgaINT0025821 @ galGal3
Intron Retention
Gene
ENSGALG00000002690 | F1NG59_CHICK
Description
NA
Coordinates
chr11:1769960-1771844:-
Coord C1 exon
chr11:1771711-1771844
Coord A exon
chr11:1770042-1771710
Coord C2 exon
chr11:1769960-1770041
Length
1669 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCA
5' ss Score
7.88
3' ss Seq
GACTTTGGTGATTGTCGTAGGGT
3' ss Score
5.42
Exon sequences
Seq C1 exon
ATTGGCTGCAGGTACCACGCGCTTCTGTGCAGGCATCGTGAGCACAGCCCGGCCCGTGTCCATCGAGCTGAAGATGGCAGACTACTCCAACAAGCTGTACCAGCAGCTGGAGCAAGAGACGGGAGTGCAAACAG
Seq A exon
GTACCAAAAGTGTAAGCATTGAGTGACTGAGTAAGCTTTGGGAGGTTGGATCAGTGAAGTGATGCTCCCATGTCTTAATTGGTGGTGGTTCCTGTTCAAAGAATGAGATGGATGCAAAAAAGTGCAATCAGAAGAATGAGAGGAAGGTGTCAGATGGGCAGGCTGAAGGCAGGCTGCCTGCTGAGTGCAGGCGTTCTTCCTCTCGTCTGTAACCTGGACAAACACAGGTGAATTTTCCCAAGGACCCTAAAGAGATCAGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGGAATTCAAAGAGATCAGAGCAAACGAGCCATGTTCTGCAGCAGTTCACTTGTCAGAAAGGCAGAAAGGTTAACGAGTTCCAAAGTGCAGGCAAAGCAAGGTGTTTTACTCCAGTTTCACCCTGGAAACATGCTGAAATTCTGCCTCTCCTTCCCAAATGCTGGGGCACATATCTGGTGTGAAGAACTGAAAGCACTCTGCTGACAAGGACCTGTGATACATGTCATGCTCGACACGTGTCCATAGCCATGTCTGTGATTAAGGTTGGTATTAAGCTGCTGCAGGTGGTAGAATCACCAAACATCTGCTTCTGCTTGGTGAGGTTTTGTTGCTCTGCGTAGCTAGCAGATGACGTGCTCACATTTTTGGCAGTAACCTCTCTTCTCTTTTAATAGGTTCCGCGTGTGGAGTTTAACTGTTCTGTAAGCATGAGTAAATGCAGAACGAAGGAGAATTAGAGTACAGCTCAGAACTAAAGCACTTTTTGTCCTTTGTTTGCTATTTGTGGTGGCTAGCTGGGGAGTGTTTCAGGTTACGTAGGGCCCGGGACCTCCTGGCTCTCAAGTAGTGGAAGCAGCGAGTCTGAAATGAAAAGGAATTTGAGATCCTGCCAAATCTGACTTGACTTTGGTGATTGTCGTAG
Seq C2 exon
GGTACGTGAAGACAGGCTCTGTTTCTCTGGCTCAGACTCAGGATCGGCTGATCTCTCTGAAACGCATTGCTTCATCTCTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002690:ENSGALT00000004241:2
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:
PF0126619=DAO=FE(12.5=100),PF071777=Neuralized=PD(58.8=65.2)
A:
NA
C2:
PF0126619=DAO=FE(7.5=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:
ATTGGCTGCAGGTACCACG
R:
TGAGAGATGAAGCAATGCGTT
Band lengths:
215-1884
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]