GgaINT0137477 @ galGal3
Intron Retention
Description
NA
Coordinates
chr23:4693649-4694597:-
Coord C1 exon
chr23:4694552-4694597
Coord A exon
chr23:4694171-4694551
Coord C2 exon
chr23:4693649-4694170
Length
381 bp
Sequences
Splice sites
5' ss Seq
AATGTAAGT
5' ss Score
8.62
3' ss Seq
CATAATTTTCTTTTCCCTAGGTA
3' ss Score
11.26
Exon sequences
Seq C1 exon
CAGTTTGAAGATAAATCTGATGCAGTATTTGATATTACAGAAAAAT
Seq A exon
GTAAGTATTTTTATTTATTTACATAAGACATAGCTCAACAAAACAATTCTTAGAAGTACCACTGCTGACAAAAAAAAGCTATCTTGTCCTTCTCCTAACCCTGCTGCTTGTTCCCTCCCCACACTACCTTCTGCACAAATGATACAAATGATAGGAATTAGAGCTATTGTCTTTTCTTTGGTTGGTTGGTTTTTCTCAGATCAGCTTCTGTTTCACTGTGTGGTGAGTGGGACAGAACTGATCAGTAATGTTGTTCCAAGAAGGCTTAAAGAGTTCGAGAAATTGCAACATTACATGGATTAGCAAAGGACCCTTCTGCTCACCTCTGTTAGAGACAAAGCTGGGAGATGTTCTGACTGCTCATAATTTTCTTTTCCCTAG
Seq C2 exon
GTAGTGAAATCCTGGATGCAGAAATGTCTGAGGACACTGTCCACAACTTACCAACTGCCCTCGACAGCGTATCTTATGAAATACAGAATCGAGCAGGATCTGAAAACTCACTGCTGGATGATGACGACGATGATGATTATTTTCTGAACTCTGGGGATTTGGCAAGCATACCTGTTGTTGGGAGTGACAACGAAGATGATCAAAATTTCACTCCGAAAGACACTCTCCCATCTGAAGACCATCTGGAAGAGGGCAAGAGGATTACAGAACACGAGCTGGACAGTGAAAAAGATATTCAGATCGAAAATGCAATCCAGAAGGATCTCACTTCACCTTTTGAGCAGGGTCCTGTATTTAAATCAATTCGAAAAGATTTTAGCATAACGAGAGATAATGGCAAAGAGACTTTTTCAACAAAGGACAAGAATAGAGAAGGAAATCTTCAAGAACATGAAAAACGGTTGGAAAAAATCCCTAAAGATACGGATTCTAGATTGAAAAGCAGTTTTCTTGACAAAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002499:ENSGALT00000003937:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.062 A=NA C2=0.846
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGTTTGAAGATAAATCTGATGCAGT
R:
AATATCTTTTTCACTGTCCAGCTCGT
Band lengths:
342-723
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]