GgaINT0058640 @ galGal3
Intron Retention
Description
NA
Coordinates
chr5:15817468-15818228:-
Coord C1 exon
chr5:15818064-15818228
Coord A exon
chr5:15817563-15818063
Coord C2 exon
chr5:15817468-15817562
Length
501 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGT
5' ss Score
11.01
3' ss Seq
ACGGTTTGTTCTTTTTTCAGAAA
3' ss Score
9.93
Exon sequences
Seq C1 exon
GTCTTTGTGGAAATTTCAATAATGTCCAAACTGATGACTTTAAGGCCATAAGTGGAGTAGTTGAAGGAACAGCAGCAGCATTTGCTAATACATGGAAAACTCAGGCTTCTTGCCCTGATATCCAGAGCAGTTTTGAGAACCCTTGTGCACTCAGCATTGATAATG
Seq A exon
GTAAGTGCTCTTAACATTATTTTTTTTAAAGAATTTTTCTAGGTTGTTTTTTTCTTATCACTAAGAAAAACACAACTATTAGAAACCAAATATAAGAGAATGAAGAATTGTGTATTTGGTGAAAACATACATCTGAAATCAGAATGTTCACAATGAGAACATGAGGGCTATGTAATGAAGTAAAGGAAGAGTCCTGGAGGCATAACTGAAAGAAATTGTGTGATCACTGAAAACAGAGAGAATGTCTAAGCTCACAGCTTGATATCAGAGGAGTGGATCACATGAGCATCCTTGGAAATTTTTTATTTGTGATATGCAGTAACTTTATTTCAATGCACCTTTGGTTTTAATAACCTTAGAGCACAAGCTGAGTGAAAAGAGACAGGAGGGGAGAAATATGATGTCATTTCAAAACATGCTTCCCAGATCAGGGAAGTGGGTATATGGGACTAATGAAATACAAAGAGTAATCTGCATTTGCACGGTTTGTTCTTTTTTCAG
Seq C2 exon
AAAAATATGCTAAGCATTGGTGTGGACTACTGACTAACAGTGAAGGACCTTTTGCTGATTGTCATTATCTACTGAACCCCTCTACTTACTACACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023540:ENSGALT00000039116:9
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=PD(11.9=33.9),PF087426=C8=PU(0.1=0.0)
A:
NA
C2:
PF087426=C8=PU(41.3=96.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCAATAATGTCCAAACTGATGACTT
R:
CGTGTAGTAAGTAGAGGGGTTCA
Band lengths:
246-747
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]