GgaINT0047788 @ galGal3
Intron Retention
Gene
ENSGALG00000009362 | ITA6_CHICK
Description
NA
Coordinates
chr7:19095858-19096397:-
Coord C1 exon
chr7:19096299-19096397
Coord A exon
chr7:19095984-19096298
Coord C2 exon
chr7:19095858-19095983
Length
315 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGT
5' ss Score
10.28
3' ss Seq
ACATGTTTTCTTTCCTCTAGGTG
3' ss Score
13.27
Exon sequences
Seq C1 exon
GAATTTTCCAAAATGAACTACCTGGACATTCTTGTTAGAGCCTCAATCAGTGTTCCTGCTGCAGCTAAGAACGTCAAACTCACAAATGAAGCTGCTCAG
Seq A exon
GTAGGTTCAGCATTTAATGCTAGCCACAGATCATGTTATGTTTCCAGCTTATCTCACAGAGATAAACCATTCTAAAGCAAAAGGAGCTAACATATTGGATTTTTTTAATCAAATTTTGAATTAGTGATCCTTTTCACATTTAATTTGGTTGGCAAAATTTGCTGCTGTATTGAAATGATACCCATAGAAACTTTTTCTTCAGAAACATTTTGTAATGAGAGGACACCTTGGGGAAGACTATAAATTTCAGTTTAATATTAAACATGGATGCTTTTGAAATGCTTTTTCAATCTTGACATGTTTTCTTTCCTCTAG
Seq C2 exon
GTGCGCGTTACTGTCTTTCCTGCAAAACCAGTAGCCCTTTATACAGGAGTGCCTTGGTGGATCATCGCAGTGGCTATTTTTGCTGGAGTACTGATGCTTGCACTCCTGGTATTCTTGTTATGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009362:ENSGALT00000015247:22
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:
NO
A:
NA
C2:
PF151761=LRR19-TM=PU(50.0=81.0),PF0035715=Integrin_alpha=PU(0.1=0.0)
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:
ATTTTCCAAAATGAACTACCTGGACA
R:
TTCCATAACAAGAATACCAGGAGTGC
Band lengths:
222-537
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]