GgaINT0009537 @ galGal3
Intron Retention
Description
NA
Coordinates
chr20:9863085-9863431:+
Coord C1 exon
chr20:9863085-9863204
Coord A exon
chr20:9863205-9863329
Coord C2 exon
chr20:9863330-9863431
Length
125 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
TGCTCCGTTCCCCACTGTAGGCG
3' ss Score
9.21
Exon sequences
Seq C1 exon
CCAGCCCTGCTGCCTGCTGAGGAGCAGCGCTTCCAGGACTGCACCGAGGTGCTCCGGGCTGGCAGCCGTGCCAGCGGGGTGTACACCCTGCACATCACCAACCTGAGCGAGCCCAGGAAG
Seq A exon
GTGAGCACAGCCCACAGAGGGCACCGTGGGGCCCAACAGTGGGATGTCCCCGCTCAGCCACGAGCCAACCCCGCTGGCAGTGGGACACGTCGCCCCACTCAGGGCTGCTCCGTTCCCCACTGTAG
Seq C2 exon
GCGTTCTGCGACATGGAGACAGACGGCGGCGGCTGGACGGTCATCCAGCTCCGCACCAACGGCAGCGTCAGCTTCCAGCGGGGCTGGAGGGAGTACAAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023639:ENSGALT00000039387:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.050 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0014713=Fibrinogen_C=PU(28.6=75.0)
A:
NA
C2:
PF0014713=Fibrinogen_C=FE(31.4=100)
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:
CCCTGCTGCCTGCTGAGG
R:
CTGCTTGTACTCCCTCCAGCC
Band lengths:
218-343
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]