GgaINT0044693 @ galGal3
Intron Retention
Gene
ENSGALG00000008980 | VWA2
Description
NA
Coordinates
chr6:29197618-29198391:+
Coord C1 exon
chr6:29197618-29197692
Coord A exon
chr6:29197693-29198257
Coord C2 exon
chr6:29198258-29198391
Length
565 bp
Sequences
Splice sites
5' ss Seq
AACGTAAGT
5' ss Score
10.74
3' ss Seq
TGTGTCTTGTTCTCTCCTAGTGA
3' ss Score
9.53
Exon sequences
Seq C1 exon
TTTGGTTGGCATTGGGCATGCAGGAAATCCTCGCTGACCAGGAGACGATTGGCAAGATCTCAGCTGCTGGCCAAC
Seq A exon
GTAAGTTTGTTTTTATAAAGCAAGCCTTCTACCTTCTGAATTCTATGTCAGCGCCTTGAAAAGGTCTCTGCAGAGTGGGCAGGCTGCCAGTGAGCTCTGTCAGAGATGCTGGGGAGCATCTCTGCAAGCAGGGGTGACTAAGGGCATGTCTCTGAGGGGGTGGGATAATAGGCAGATCTCTGGGAGACATCTCTGTCAGTGCTTTGCAACACAAACAAGAGAGTTTGTGTTTAGAAAAGCAGAGTGTGCTTTGGAAAGTGTGCTGTAGATGGAGCACATCTGGCTCAGCTGGATGTGGTGCATGCTGTGAACGCCTCGCAGTTCTCTCCTGTGCCTCAGGCTGGGATGGGGCTCACTCTGTGCTTGTGGGCTCTCTACGTCCACTTACCAGAGCTGCTGGTTCAGTTGCTTTGCTGGACTCACAGAGCCATGCTAGGGACCTGAAATCTGAAATGTCGGGGGAAAGTCTTGCAAACTGTGAGCACTGAATGGAATGTTTTCTACAACATCTGCCCATCTACCTTCTGCAGTCACCTGTGACCCTGTGTGTCTTGTTCTCTCCTAG
Seq C2 exon
TGATGTGGTGCTCAGCTTCTGTTGATATCCTTTTCCTCTTGGATGGCTCCTACAGCATTGGCAGAGGCAGCTTTGAAAGATCGAAGCACTTTGCAGGCAAGCTCTGTGATGCCCTGGACATCCATCCAGGCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008980:ENSGALT00000033088:2
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:
NO
A:
NA
C2:
PF0009223=VWA=PU(20.9=80.0)
Main Inclusion Isoform:
NA
Other Inclusion 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:
TTGGGCATGCAGGAAATCCTC
R:
CCTGCCTGGATGGATGTCC
Band lengths:
198-763
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]