GgaINT0106886 @ galGal3
Intron Retention
Description
NA
Coordinates
chr1:183400495-183401197:-
Coord C1 exon
chr1:183400858-183401197
Coord A exon
chr1:183400589-183400857
Coord C2 exon
chr1:183400495-183400588
Length
269 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGG
5' ss Score
6.38
3' ss Seq
CCCCATCTTTAACTTCACAGACC
3' ss Score
8.49
Exon sequences
Seq C1 exon
CAGAACTCTACTGTAGAAGATGATGATGATGTAGTTTTTATTGAACCTGTACAAACGCCACAAAATTCTACATCACTGATAGCAGAACAAAGGAACGCTGCATTTGCATTGTCAAAAAATGACGAACTTCAAGGAGATGATTGCAAAATGCTTCCTCCTCCGAAAGACTTGAATTCTCAAAAGGGGAGTATAAGTGAAACTATTATTATTGATGATGAAGAAGATATTGAAACAAATCAAGGACAAGAGAAGAATGCTTCCGGTTTTAATGAGCGAAGACTTCCAGAGTGTAAAAACAGAGCCAACGATATGGATTTCTCAGCTTCCAGTTTTTCAAGAA
Seq A exon
GTAAGGTAAATTCAGGAATTGATAATAGTGGTATATCCACAGAACCAGACTCTGACATTCAGATTGCTAATGTAACTACATTAGAAACAGGTGCTATGAGCTCTGTGAGCGATGGTCATGTAGAAAATGATGAAGGGCGTGACATGAACTTAATGATTACGCATGTAACATCATTGCAGAATGCCAACTTGGGAGATGTATCTAACGGACTGCAGTCAAGTAATTTTGGTGTTAATATGCAAACATACACCCCATCTTTAACTTCACAG
Seq C2 exon
ACCAAGACTGGTGTAGGACCTTTCAATCCTGGTAGAATGAATGTGGCTGGCGATGTATTTCAAAATGGAGAATCTGTGACTCATCATAATCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000017139:ENSGALT00000027684:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.208 A=NA C2=0.973
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAAAGGAACGCTGCATTTGC
R:
ATCGCCAGCCACATTCATTCT
Band lengths:
308-577
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]