GgaINT0132880 @ galGal3
Intron Retention
Gene
ENSGALG00000013781 | Q90WH5_CHICK
Description
NA
Coordinates
chr19:14556-15310:+
Coord C1 exon
chr19:14556-14646
Coord A exon
chr19:14647-14920
Coord C2 exon
chr19:14921-15310
Length
274 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGG
5' ss Score
7.2
3' ss Seq
TACCTGTCCATGGACTACAGGCA
3' ss Score
3.44
Exon sequences
Seq C1 exon
GAAAGACTTTGAACTCAACACACTCAATGCTCGAATTGAGGATGAGCAAGCGATTTCTGCCCAGCTCCAGAAGAAGCTGAAAGAGCTTCAG
Seq A exon
GTCAGGCTGAGGTGGAGTTGAAGTGTCTCTACTTGGTTGTGTTGAGCAATTTGGGTTGGGTTGAATTGGTTTGGGTAGAGGTGTCTCCAGTTGGGTGGATTGGGTTGAAGAATCTCCATTGGGTTGGGTTGAGTTCAGTTGAATGGACCCTCCGTCAGATTGGATTTGAAAAATATGCAACTGGTTGAGTTGGTTTGAAGACTCTCCAACTGGCTGAGTGGAAGAATTGGGCCCAGGGAAGCCCTGTGATGTTCTACCTGTCCATGGACTACAG
Seq C2 exon
GCACGGATTGAGGAGCTGGAGGAGGAACTAGAGGCAGAGCGGACGGGCCGGGCTAAGGTGGAGAAGCTGCGCTCAGAGCTGTTGCAGGAACTGGAGGAGACCAGTGAGCGGCTGGAGGAGGCAGGTGGTGCCACTTCAGTGCAGCTCGAGCTTAACAAGAAGCGGGAAGCCGAATTCCAGAAGCTGCGGAGGGACCTGGAGGAGGCCACATTGCAGCACGAGGCCACGGCTGCCACGCTGCGCAAGAAGCATGCTGACAGTGTAGCTGAGTTGAGTGAGCAGCTTGACAACCTGCAGCGTGTCAAGCAGAAGCTGGAGAAGGAGAAGAGTGAGCTCAAGCTGGAGCTGGATGATGTCAACTCCAACACGGAGCAGCTCATCAAGGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013781:ENSGALT00000040718:25
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=0.657
Domain overlap (PFAM):
C1:
PF045827=Reo_sigmaC=FE(21.4=100),PF0157614=Myosin_tail_1=FE(8.8=100),PF079267=TPR_MLP1_2=PU(0.8=3.2)
A:
NA
C2:
PF045827=Reo_sigmaC=PD(49.3=53.1),PF0157614=Myosin_tail_1=FE(37.7=100),PF079267=TPR_MLP1_2=PD(97.7=97.7),PF059116=DUF869=PU(29.4=36.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCTGCCCAGCTCCAGAAGAA
R:
CAGCTACACTGTCAGCATGCT
Band lengths:
305-579
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]