GgaINT0047787 @ galGal3
Intron Retention
Gene
ENSGALG00000009362 | ITA6_CHICK
Description
NA
Coordinates
chr7:19096299-19096587:-
Coord C1 exon
chr7:19096477-19096587
Coord A exon
chr7:19096398-19096476
Coord C2 exon
chr7:19096299-19096397
Length
79 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGT
5' ss Score
9.82
3' ss Seq
TGTATTTTATTTTGGAACAGGAA
3' ss Score
7.43
Exon sequences
Seq C1 exon
GACTGCAAGGTGAATGCACAGTGCGTGGACATAAGATGTCCATTGAAGGGTTTTGACAGCAAGGCATCAATTTTGCTGCGTTCCAGACTGTGGAACAGTACTTTCTTGGAA
Seq A exon
GTAAGTCCTCTTGCCATTTCTGAAAGTTTAGAGTTCTTTCCTGTCATTTGTCTAATAACTGTATTTTATTTTGGAACAG
Seq C2 exon
GAATTTTCCAAAATGAACTACCTGGACATTCTTGTTAGAGCCTCAATCAGTGTTCCTGCTGCAGCTAAGAACGTCAAACTCACAAATGAAGCTGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009362:ENSGALT00000015247:21
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:
PF084417=Integrin_alpha2=PD(2.5=32.4)
A:
NA
C2:
NO
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:
GCACAGTGCGTGGACATAAGA
R:
CGTTCTTAGCTGCAGCAGGAA
Band lengths:
169-248
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]