GgaINT0027389 @ galGal3
Intron Retention
Description
NA
Coordinates
chr10:20349284-20349791:-
Coord C1 exon
chr10:20349663-20349791
Coord A exon
chr10:20349518-20349662
Coord C2 exon
chr10:20349284-20349517
Length
145 bp
Sequences
Splice sites
5' ss Seq
AAGGTACAG
5' ss Score
8.04
3' ss Seq
TTATGAATTACTTTTAACAGCGG
3' ss Score
5.31
Exon sequences
Seq C1 exon
AGTGCTCACCAGGAACATTTGGTTATGGTTGCAAACAACTCTGTGAGTGCATGAATAATGCCACATGTGACCATGTCACAGGTACTTGCTACTGCAGTCCGGGCTTCAAAGGAATCAGATGTGATCAAG
Seq A exon
GTACAGTGAAATTCTATCTGTAAGATCTCTCTCCCCCTCTGTCCCTCTTTGTTTTGTTTTTGTTAACAATGATGCACTTACTTAAAAATCTCAGAAATGAATTGCGCGATTCAATTTACAGTGTGTTATGAATTACTTTTAACAG
Seq C2 exon
CGGCTCTTATGATGGAAGAATTAAACCCCTATACTAAAATTAGTCCTGCTCTTGGATCAGAGAGGCACTCAGTGGGAGCAATCATTGGAATTATTATTCTCCTTCTAATTATTATGGTCTTGCTGGCACTGTTTGTGTGGTATCGACGGAAACAGAAGGAGAAGGGCCATGACATGCCAAGTGTATCTTACACTCCAGCCATGAGGATGACTAATACAGATTACTCACTTTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007631:ENSGALT00000012349:14
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=0.044
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=PD(28.6=27.3),PF0005319=Laminin_EGF=PU(78.4=65.9),PF0200911=Rifin_STEVOR=PU(4.9=6.8)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(18.9=8.9),PF0200911=Rifin_STEVOR=PD(93.4=72.2),PF153301=SIT=PU(77.6=65.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGTCCGGGCTTCAAAGGAAT
R:
TCATCCTCATGGCTGGAGTGT
Band lengths:
245-390
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]