GgaINT0128794 @ galGal3
Intron Retention
Description
NA
Coordinates
chr18:4552307-4552771:+
Coord C1 exon
chr18:4552307-4552402
Coord A exon
chr18:4552403-4552645
Coord C2 exon
chr18:4552646-4552771
Length
243 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAA
5' ss Score
8.38
3' ss Seq
TTTCTTGCCCATGTCTCCAGTTC
3' ss Score
7.49
Exon sequences
Seq C1 exon
GCTCACCAGGAAGCCCTGAAGAATGAGTGGCAGAACTTCCTGAATCTCTGCATTTGCCAGGAGAGTCAACTGAAAAGCGTGGAGAACTACAAGAAG
Seq A exon
GTAAAAAGCAGTGAGGAGAGCAAAGACCACGGGGGTACATAGCTGTGCCAGGGTGGGCAGAATGCTTGCTGCCGTTACCCAGTACGTGTCCATCGGCACGGCTCACACCACGGACAGCTCTTGTCCAACCCCATGCTCTAGGATGGCCGTGGAGTTTTGTGAGCTGTGGGAGCTTAGCTGGGAACTGAGACAACCCACCAGATGTTCTCCCACCTCTGACTGCTTTCTTGCCCATGTCTCCAG
Seq C2 exon
TTCCAGGATGATGCTGAGACTGTGAGCCGCTCCCTGAAGAAGATGAGCTCCGATCTGGACACCAAATACACCAAGTTCAACAAAGACAGCCCTGGCGTGGTGTCAGATCTGCTGCTCCATCTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002108:ENSGALT00000003290:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.031 A=NA C2=0.048
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(23.8=78.1)
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:
GGAAGCCCTGAAGAATGAGTGG
R:
TCCAGATGGAGCAGCAGATCT
Band lengths:
213-456
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]