GgaINT0058639 @ galGal3
Intron Retention
Description
NA
Coordinates
chr5:15818064-15818452:-
Coord C1 exon
chr5:15818313-15818452
Coord A exon
chr5:15818229-15818312
Coord C2 exon
chr5:15818064-15818228
Length
84 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGT
5' ss Score
10.36
3' ss Seq
TTTTCACTGGTTTTCAACAGGTC
3' ss Score
10.58
Exon sequences
Seq C1 exon
AGCCAACGTCACCATCTTTAGACCTTCATCATTTTTCGTTATCATGCACACAAATATTGGCATCCAGGTTGAAATCCAGATCACACCCATCATGCAAGTGTTTGTGCGATTGGACCCTGTGTTCAAAGACCAAACCTGTG
Seq A exon
GTAAGTGAATGAAGCTGAAGAACATGTTGCTAAATGTCTTTTGTTGAGTACAAACAGTATAAACTTTTCACTGGTTTTCAACAG
Seq C2 exon
GTCTTTGTGGAAATTTCAATAATGTCCAAACTGATGACTTTAAGGCCATAAGTGGAGTAGTTGAAGGAACAGCAGCAGCATTTGCTAATACATGGAAAACTCAGGCTTCTTGCCCTGATATCCAGAGCAGTTTTGAGAACCCTTGTGCACTCAGCATTGATAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023540:ENSGALT00000039116:8
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:
PF0009420=VWD=FE(29.6=100)
A:
NA
C2:
PF0009420=VWD=PD(11.9=33.9),PF087426=C8=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCGATTGGACCCTGTGTTCAA
R:
GCACAAGGGTTCTCAAAACTGC
Band lengths:
183-267
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]