GgaINT0058648 @ galGal3
Intron Retention
Description
NA
Coordinates
chr5:15812287-15813018:-
Coord C1 exon
chr5:15812954-15813018
Coord A exon
chr5:15812447-15812953
Coord C2 exon
chr5:15812287-15812446
Length
507 bp
Sequences
Splice sites
5' ss Seq
GAAGTCAGA
5' ss Score
-3.82
3' ss Seq
CACTATGAACTGGTACTCAGTGA
3' ss Score
1.56
Exon sequences
Seq C1 exon
GTACGTAGGTATTGCATTACAGACCAGGAGTTTTTTGTTGTGTATCTGTATAAGGCTTGGGAGAA
Seq A exon
GTCAGAATATCCATTGCTGCAAGGAAGTTTGGAGAAAATATTTTAAAAAGCAAATCAACTTGTAAATTAAGCTTAAACTAGAATCAGGTGAAGTATTCAGTACAGCTTCCCAGATTTCTGCCTATTCCACCCCTACAAAGCCATCTTATACTTAACCTTGGACAAAGTACATCTCTACAGGAAAATAACCTGTTGCAGAAATTTGGCTGAACACATTAGAAGATTATCTTACTCTGTGTACTGTAGTTCCTTCATGACTACTGTGACATCCTTTTTTAGTCTACAATCTGCTTCATTTAAAATACATTTTTACCACAATTCCGTGAACCTGAGATTTGAACCACACTGTTAAGATTTATTGCGTTCGGATGACGTATTTTTATTAAACAAACTGGTTTTAATACTCTTAAAAGTGGGGAAAAAAATGTTTAATAGCACAGCTGTAGCTATTAGGTTCATGTCTGATCACCTTTTCCTCCTGTTTCAGCACTATGAACTGGTACTCAG
Seq C2 exon
TGAGGAGCGTGTCAGTGTGATAAAGAGAGGACAAGATGGTGAAGTACCATTCACAGTCCGCTATATAGGTATGTACACAGTGATTGACACCACCAGCGGACTGATCCTCATGTGGGACAAGAAAACCAGCATCTTCATCAAGCTGAGCCCTGAATTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023540:ENSGALT00000039116:17
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(29.2=100),PF0009420=VWD=PU(1.3=4.5)
A:
NA
C2:
PF0009420=VWD=PD(29.2=38.9),PF0009420=VWD=FE(67.1=100)
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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTACGTAGGTATTGCATTACAGACCA
R:
AAATTCAGGGCTCAGCTTGATGA
Band lengths:
222-729
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]