GgaINT0143412 @ galGal3
Intron Retention
Description
NA
Coordinates
chr27:3884347-3885006:+
Coord C1 exon
chr27:3884347-3884456
Coord A exon
chr27:3884457-3884902
Coord C2 exon
chr27:3884903-3885006
Length
446 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
CTTTTCCCTTTCTCTTGCAGACC
3' ss Score
14.31
Exon sequences
Seq C1 exon
GGTGGGCCCACGTTGTGTGTGCTCTGTACATCCCAGAGGTGCAGTTTGCCAACGTGCTGACCATGGAGCCCATCGTCCTGCAGTACGTTCCGCACGACCGCTTCAACAAG
Seq A exon
GTGAGCCCTCCTTGCTCCCTCCCTGCCCCAAGCACACCTACCCTGCTTTGCTTCGTGGGTTCTTTCAGTCCTCCGTGTCTCCTATCAGGCTGATTTTAACCTCCGGGTGCTGAGATCTCTGTAACAAGAACCCACAAAGCAAATCCTCCTTGCAAGTAACGCTCGATCCCCTCTTTCCCTCTCCCCCAGTGTGGCCACCTGCACGGTCCCTCAGCTCCTTTAAGCTGCGCGTTTATTGCTCCCTGTTCGGATCGAATGCGTTCGTTGTTTGGGGTTGAAGAAGGGGATGCATGAGTTGTGTGCATGGCACTGAGGAACAGCCGCGGCTGCCGTCACAGGAGGGGGATGATGTGAGATCTGAGCCGCTGAAGGCTTTGCCTCCTGGAGAGCAGCGGGAGCAAAGCAGTCCGCCTCTCTGAGAGGTCTCTTTTCCCTTTCTCTTGCAG
Seq C2 exon
ACCTGCTACATCTGCGAGGAGCAGGGCAGGGAGAGCAAGGCAGCCTCTGGAGCGTGCATGGCGTGCAACCGGCACGGCTGCCGGCAAGCTTTCCACGTCACCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001574:ENSGALT00000002392:3
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:
PF138321=zf-HC5HC2H_2=FE(30.5=100)
A:
NA
C2:
PF138321=zf-HC5HC2H_2=FE(28.8=100),PF045929=SelP_N=PU(7.6=25.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACGTTGTGTGTGCTCTGTAC
R:
CAGGTGACGTGGAAAGCTTGC
Band lengths:
206-652
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]