GgaINT0123831 @ galGal3
Intron Retention
Gene
ENSGALG00000004852 | E1BV15_CHICK
Description
NA
Coordinates
chr17:5685430-5685836:-
Coord C1 exon
chr17:5685676-5685836
Coord A exon
chr17:5685573-5685675
Coord C2 exon
chr17:5685430-5685572
Length
103 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCA
5' ss Score
7.88
3' ss Seq
TAAACCTTCTTCCTGTACAGCAA
3' ss Score
8.4
Exon sequences
Seq C1 exon
GTTACATCGGCGTCGTCAACAGAAGTCAGAAGGACATCGATGGCAAGAAGGACATTCAGGCAGCTCTGGCTGCAGAGAGAAAGTTTTTTCTCTCCCACCCAGCCTACAGACACATGGCTGATCGTATGGGAACCCCCTACCTGCAGAAAGTATTGAACCAG
Seq A exon
GTACCATCACCAGTTGAGAACTGCTGCCCACTGTGCCCCTTATTCTGGGATAGCGACATAGCAAACTTCTCCCAATTTCACCTTAAACCTTCTTCCTGTACAG
Seq C2 exon
CAATTGACCAACCACATCCGTGACACCCTGCCGGGGCTGCGGAACAAGCTGCAGAGCCAGCTTCTCTCCATTGAGAAGGAGGTGGAGGAGTATAAGAACTTTCGCCCCGATGACCCTGCTCGCAAGACCAAAGCTCTGCTTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004852:ENSGALT00000039847:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.019 A=NA C2=0.125
Domain overlap (PFAM):
C1:
PF0103115=Dynamin_M=FE(17.9=100)
A:
NA
C2:
PF0103115=Dynamin_M=FE(15.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCAGAAGGACATCGATGGCA
R:
GTCATCGGGGCGAAAGTTCTT
Band lengths:
251-354
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]