GgaINT0137504 @ galGal3
Intron Retention
Description
NA
Coordinates
chr23:4671104-4671805:-
Coord C1 exon
chr23:4671557-4671805
Coord A exon
chr23:4671234-4671556
Coord C2 exon
chr23:4671104-4671233
Length
323 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
TACCATTTTTGTGTGTCCAGATA
3' ss Score
7.38
Exon sequences
Seq C1 exon
GTTATATGTTCTCAAGAATAGAAGAGGAACACTTGTGGGAATGTAAACAGCTGGGTGCATATTCCCCCATAGTTTTACTGAACACACTGCTATTCTTCAACACCAAATACTTTCAACTAAAGAATGTCAGTGAGCACCTGAAGCTGTCCTTTGCCCACGTCATGAGACGGACCCGGACTCTGAAGTATAATACTAAGACAACATATTTACGTTTTTTCCCACCCTTTCAAAAACAAGAGGTAGAATCAG
Seq A exon
GTAAGTGGATGCTTTATGATCGCCTGAATCTCTGCAGTCATGGTTTTGTTATCTCCTCCTTATTTGAAAAGGGCAGGGGGGAAAAACATAGAGTAAGCAGAGCTGTGGGTAGTTTGGTTTCTGCTGTTATCCTGCACTCTTTCAAATTCTTTCACTCCGGGATGATTTAAAGAGGAATTGTTTGCAGCAGGTGATCACCTCAAGCAGTGTGTTTCGAGGTGTTGCAGAGTCCAGTCAGACTGGTGCCAGGCTGCAGGACTCTGTGTGACCTTTCATGTGCTCCTCTTCACTGAACCTGAGTGATACCATTTTTGTGTGTCCAG
Seq C2 exon
ATAAACTGTCTGTAGGCAAAAGGAAACGCGGTGAAGATGAGGAGATTTCAACAGCAGTGGAAATGGCTGAAAATGCAGATAATCCCCTGAGATGTCCAGTGCGACTTTATGAATTTTACTTGTCAAAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002499:ENSGALT00000003937:28
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=0.295
Domain overlap (PFAM):
C1:
PF120123=DUF3504=PU(47.7=98.8)
A:
NA
C2:
PF120123=DUF3504=FE(24.7=100)
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:
AGAAGAGGAACACTTGTGGGA
R:
TCATAAAGTCGCACTGGACATCT
Band lengths:
342-665
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]