GgaINT0142533 @ galGal3
Intron Retention
Description
NA
Coordinates
chr27:1597896-1598328:+
Coord C1 exon
chr27:1597896-1598110
Coord A exon
chr27:1598111-1598196
Coord C2 exon
chr27:1598197-1598328
Length
86 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCA
5' ss Score
7.88
3' ss Seq
ACTCGGTGTTTCTTGCCCAGGAC
3' ss Score
8.37
Exon sequences
Seq C1 exon
AGGGGCTACTCTTCTGGAAGAGGAAGGACAAAGCTCTGTCCACTGAGTTCCTCTGGGCTGAGGCTGCACCAGCAGAGGTAGAGATGACGGCCTATGTCCTCCTGGCATACCTGACCCAGCCCCAAGTGTCCCGTGCTGACCTGGCCAGAGCCTCCCAGATCGTCCGCTGGCTCAGCAAACAGCAAAACCCCTACGGAGGCTTTGCCTCCCCCCAG
Seq A exon
GTACCACCACGGGGTCTCCCACCACAGGGCTGGGATGCCACCAGCTGCAACTTGGGGGTGACCGCAACTCGGTGTTTCTTGCCCAG
Seq C2 exon
GACACCGTGGTGGCCCTGCAAGCTTTGGCCAAATACGCCACCCTGACATATGGCAAGAGTGGGGACCTGGCGATAACAGTGACAGCCCCAACTGGCTCCAAGCAGGACTTCATGCTGGAAGCCAGCAATCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000293:ENSGALT00000000384:28
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:
PF076789=A2M_comp=FE(29.1=100)
A:
NA
C2:
PF076789=A2M_comp=PD(5.3=29.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATGACGGCCTATGTCCTCCT
R:
ATGTCAGGGTGGCGTATTTGG
Band lengths:
182-268
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]