GgaINT0095236 @ galGal3
Intron Retention
Description
NA
Coordinates
chr2:345927-346682:+
Coord C1 exon
chr2:345927-345973
Coord A exon
chr2:345974-346473
Coord C2 exon
chr2:346474-346682
Length
500 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGG
5' ss Score
7.61
3' ss Seq
GCATCCCGTGCTGCTGGCAGCCT
3' ss Score
3.66
Exon sequences
Seq C1 exon
CGTTTGCATCCGTGGCACCTTCAACTGCTCGCAGGAGGAGTGCAATG
Seq A exon
GTGAGGGCATCCCGTCCTCATCCCCGTGCCCGCGCTGTGATCCCTGTGTCACAGCTGGGCCTTGCTCGTTCCCCCTGCAGTGGATTGCCTGTGGTCTCCGTGGTCGCCCTGGTCCCCCTGCTCGGTGACGTGTGGGATGGGTGAGCGGCTCTCACACCGGCACCCACTGCGGCAGCGCCTCTATGAGGGGGCTGAGTGCCTGGGGCCCCCCGTGCGCCGGGCTGCCTGCCACCTCCCCGACTGCGGTGAGTGTCCCCAGAGTCCCCAGGTATGGCTGTGGTCTCATCAAGCTGCAGAGCAGAGCATGGAGCAGAGTGGGGGTGATGGGGCGGGTGGTGAGGGAAGGGGGCAAGCCGTCACAGTGGGATGCGGGGGCTCTGGGGCTGCACGAGCACGTGGGGGGGTTTGTCCCCCACCGCCACCAGCCCTGGCCACTTTGGTCCCTACATGCTGGGCTGCTGCATGGCCAGTGCTGGTGATGCATCCCGTGCTGCTGGCAG
Seq C2 exon
CCTGTCCGGAGGGGGAGCGCTGGCAGGGCCCTGAGGTGCCACCAGGCTGTGAGCAGAGCTGCAGGGACATCCTCGATGAGACCCCTGCAAACTGCACCCCTTCCCCCTCCCCCGGCTGCACCTGTGAGCCCGGCCACTACCGCAACAGCAGCGGCCACTGTGTGCCCTCCACCCTCTGTGAGTGCCTGCACCAGGGGCAGCTCCACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004919:ENSGALT00000039375:71
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:
PF053758=Pacifastin_I=FE(53.3=100)
A:
NA
C2:
PF0182612=TIL=PD(83.1=84.3),PF0009313=VWC=PU(14.3=11.4),PF053758=Pacifastin_I=PU(2.7=1.4)
Main Inclusion Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTGCATCCGTGGCACCTTC
R:
CTGGTGGAGCTGCCCCTG
Band lengths:
254-754
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]