GgaINT0112117 @ galGal3
Intron Retention
Description
NA
Coordinates
chr1:80931564-80932633:-
Coord C1 exon
chr1:80932322-80932633
Coord A exon
chr1:80931654-80932321
Coord C2 exon
chr1:80931564-80931653
Length
668 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
AAGAAGTGTCCACTGTGATGGAA
3' ss Score
-9.13
Exon sequences
Seq C1 exon
GGTGCCCAGGGGGCAGACTAGTGAATGGCACCACATGCTCTGGCAGAGTGGAAATCCGCCATGGAGATACATGGGGAAGACTCTGCAGCTCCCACTGGAATTTGCAGGCTGCTAGCGTTCTCTGCTATCAGCTGAACTGTGGCTATGCAAAGTCAATCCAGACAGGAGACAGTTTTGTGGATGGGAATGGGCCTGTATGGAGAGATGCTTTTCACTGTAAAGGGACAGAGTCCTGCCTGTGGGATTGTGCTCAAGTGACTTTGGGCAATCCAACCTGTTCAGCCAAAGAAGTAGCCACTGTTGTTTGCTCAG
Seq A exon
GTAAGTCAGGAATGGGTTTTTACACGTTTTGAAACTTCACACCAAAGCAATCTTGGTGATCTCACTTTGCCAAGTCGTCAGCTTATATTTAATGTCCTCCTTCCTTCACTACCCACCCATCACCCTTCTGTCCCCAGTTTCAGCATAAAAACTTCATTTAGTAAGATTTCACTCTAGAGGAATTCACATTATTTAGATGTGCCTTATTCCTCACAGGATGTAGCCTTTTAGCTGGATACATCTTTCTTTCTTACTATTGCAAAACCTTCTGGGCATAGAAGCAAGCAAAGCCTTACCACAGGCTGTCTCCTTTATCATTGGAGTGAAATACTCTCTATCATCATATAAATTCGACTTCCATCTCTCTCCTGCATGTTATTTCTACTGTGATAACGTCAGTAAACTTTATTCAGTGCATTTTCCAAACCTTTTGAACCCAGGTCTTACTGAATCACTCAGACTCTCAGATGGTCAGAGCCGCTGCGATGGGCGTGTTGAAATCTCCCTTGATGGCATGTGGAGCAGAGTCCTAGATGACGACTGGAACATCAAAGATGCTCATGTGGTATGCAGACAGCTCCAGTGTGGAATAGCCAAGAGAGCCTATTACCTTCCAAGGTCTGAACGAGGCATCGGTCCTGTGGGCTTAAGAAGTGTCCACTGTGATG
Seq C2 exon
GAAATGAGACTCAGCTACTGCTCTGCAAGACCTCCCATTCTCAGGTGCTGTCAGCAGGAGTTGCTGAAGATGTTGGTGTGATTTGCTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000014720:ENSGALT00000023738:5
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:
PF0053013=SRCR=WD(100=92.4)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
AGGGGGCAGACTAGTGAATGG
R:
GAATGGGAGGTCTTGCAGAGC
Band lengths:
345-1013
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]