GgaINT0095224 @ galGal3
Intron Retention
Description
NA
Coordinates
chr2:341659-342145:+
Coord C1 exon
chr2:341659-341931
Coord A exon
chr2:341932-341998
Coord C2 exon
chr2:341999-342145
Length
67 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
3' ss Seq
CACCCTCTGCTCTGCCACAGCTG
3' ss Score
8.6
Exon sequences
Seq C1 exon
GCGTTCCCAAATATCCCCGGGGCTCTGGGGATGGAGGGGACCAGGTGACACTACGGCCCGTGACATGCCACCTCTCCACCCCAGGGGCCGAACACTGCACGTGGGGCACATGGAGCCCCTGCTCCCGGAGCTGTGGCACCGGCCTGGCCTCTCGGGAGGGCTCCTGCCCTTGCCCATTTCCGGGTCCCCCTGGTGCCCTCTGCAATGCCAGCACCGGAGATGGAGCCAGAGCTCACCGGGAGGTGCAGGCCTGCTACCTGCGCCCCTGCCCAG
Seq A exon
GTAGGGGATCGGCACAGGTGTGGGGCAGTGGGGCCATACCCACTCCTCACCCTCTGCTCTGCCACAG
Seq C2 exon
CTGAGTGTTCCTGGAGTGCCTGGAGCTCCTGGGGCGGCTGCTCCTGCAGCTCCCCACTGCAGCACCGGTACCGGCACCGGCATGGCACCGGCCTCTGCGTGGGGCTGGACGTGGAGCTGCACCCCTGCAACACCTCGGGATGCTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004919:ENSGALT00000039375:59
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.051 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009014=TSP_1=WD(100=63.0)
A:
NA
C2:
PF0009014=TSP_1=WD(100=86.0)
Main Inclusion Isoform:
NA
Other Inclusion 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:
CTCCTGCCCTTGCCCATTTC
R:
AGTGGGGAGCTGCAGGAG
Band lengths:
171-238
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]