GgaINT0021592 @ galGal3
Intron Retention
Description
NA
Coordinates
chr12:8919066-8919896:-
Coord C1 exon
chr12:8919745-8919896
Coord A exon
chr12:8919205-8919744
Coord C2 exon
chr12:8919066-8919204
Length
540 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGT
5' ss Score
8.4
3' ss Seq
TTATTTCTTTCTTTGTGAAGACC
3' ss Score
5.37
Exon sequences
Seq C1 exon
ATGAAAGGGAGAGGACGTTGGGTTCATTGGAATGGGTTTATTAAAAATGTTGATTACAGTGGTAAAAATGTGAAGATTCAAGATATCATCGTCCCAACTATGGATACAGTCCGATATACCTATTTGATGGAACTGTTTGTTACCCATGGAAA
Seq A exon
GTGAGTTACTTCAATACAAATTTCTGAGTTACTTGTTATAGGCAGAAACATCTCTTACTCTTTCCATTGATTTCATGTAGAGCTTATTTGGCCTGTTGAAAATAGGAAATTATTAGAAACAATGCACTTTATTGTCTCAATTCTGGGTTTGATTTGTTTTTCTTTTTTTTCTTTTCTTCTTTTTTTTTTTTTTTTTGGTTTAATGAAGTTCTGCTGTAATCTTGCTTTATTATGCTGATTCTTTGTTTTTCTGTTGATGGTGTTAACTTCTTTGTGTGTGCATACACGCTCCAAAACCAAAAGAATGAGAAAAGTTTTTCTCTTTGACCCCTTTGTCTTCTCATTGTGTGTGAACTACAATTATGAGGAAGTTGCATGGATATGTATTTCAAAACATCATATTGTCTTCTCTTTTTAAGGCATTTTATGTTTTCTGAGGTAGGAAAATGTCAAAAAGTCTTTGTATTCTAGTGGCAGTTAATTTGTAGTTCAGATTTCTGCAGTCTGTGCTTTTTTTGTTTTATTTCTTTCTTTGTGAAG
Seq C2 exon
ACCACTCCTTTTAGTGGGACCCACAGGTACTGGGAAATCCGTATATGTCAAGGATAAGTTGATGAACAACTTGGATGGGGAGCGCTACTTTCCCTTTTTCATTAATTTTTCAGCTCGAACCAGTGCCAACCAGACTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005601:ENSGALT00000008986:37
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:
PF127752=AAA_7=PU(11.4=60.8)
A:
NA
C2:
PF127752=AAA_7=FE(16.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAGGGAGAGGACGTTGGGTT
R:
GAGTCTGGTTGGCACTGGTTC
Band lengths:
286-826
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]