GgaINT0039187 @ galGal3
Intron Retention
Description
NA
Coordinates
chr8:15889559-15890015:-
Coord C1 exon
chr8:15889870-15890015
Coord A exon
chr8:15889773-15889869
Coord C2 exon
chr8:15889559-15889772
Length
97 bp
Sequences
Splice sites
5' ss Seq
GAAGTAATT
5' ss Score
3.7
3' ss Seq
TGTTTTTGTATTTTAAAAAGGCA
3' ss Score
5.69
Exon sequences
Seq C1 exon
CAAAACCTGTGATAAGCCCTCTTGAACTCCGAATGGAAGAACTACGGCATCATTTTAGGATAGAATATGCTGTTGCAGAAGGTGCAAAGAATGTGATGAAATTACTTGGATCTGGGAAGGTTACCGACAGAAAGGCACTTTCAGAA
Seq A exon
GTAATTTATCATTACAATTTCTGAAACTTTACTTTAAATGTTCTTTCAAGGGGAAAAAAAACATCAAATATTGTATTTGTTTTTGTATTTTAAAAAG
Seq C2 exon
GCACAAGCAAGATTTAATGAATCAAGCCAGAAGTTGGACCTGTTAAAGTATTCACTGGAACAGAGATTGAATGAACTTCCTAAAAACCATCCCAAAAGTAGTATTATTATAGAGGAGCTTTCATTGGTCTCTTCACCCACATTAAGTCCTCGTCAAAGTGTAATATCTACTCAGAACCAATACAGTACACTGTCCAAACCAGCAGCTTTAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006237:ENSGALT00000010087:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.061 A=NA C2=0.111
Domain overlap (PFAM):
C1:
PF154561=Uds1=FE(55.2=100),PF0218511=HR1=PU(53.4=79.6)
A:
NA
C2:
PF154561=Uds1=PD(33.3=40.3),PF0218511=HR1=PD(43.8=44.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCCTCTTGAACTCCGAATGG
R:
ACAGGTCCAACTTCTGGCTTG
Band lengths:
174-271
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]