GgaINT0124437 @ galGal3
Intron Retention
Gene
ENSGALG00000002375 | Q9W737_CHICK
Description
NA
Coordinates
chr17:8514284-8515835:+
Coord C1 exon
chr17:8514284-8514397
Coord A exon
chr17:8514398-8515721
Coord C2 exon
chr17:8515722-8515835
Length
1324 bp
Sequences
Splice sites
5' ss Seq
CTGGTACGT
5' ss Score
9.57
3' ss Seq
AATGTCTGCCTCTGTTTCAGGGT
3' ss Score
10.72
Exon sequences
Seq C1 exon
GATACGAGGGCGTCTACTGTGAAATCAACACAGATGAGTGTGCCAGCAGCCCCTGCCTGCACAATGGCAACTGCCTGGATAAGATCAACGAGTTCCACTGCGAGTGCCCCACTG
Seq A exon
GTACGTGGCATCCCTTCTCTGCATCCTTTATGGCATCCCTGGTGCTGGGTGCCTACCCGGACAGGGCAGAGCCCAACAGTTGGCTCCATCCGTTGCAGAGCTGCAGCCCTGCAGCAGTGTGGGATGCTCACAGCAAAACTGTGCCATGAGTGACATCCCCATACGTGCAGCGGGTTGGGCGCAGAGCCGCCACTTTGGGGATTTTTTCACCATTCCAGTGATGGGTTGAGCCCCATTGCTGCACCAGTCCATGGGAGAGGGGAAGGTGGATTAAAGCCCTCGGCTTTGCACTTGAAAAGGCCCCTCTTTGGGAAGGAGGGCCGGGGGCCGGGGGGGCCTCGCCAGCCACTTTGAATGCTGTGTCAAAGTCACGGGGTGGAGCGGAGAATGGGGAGACGGTTAATCTGTGAAAGGAGGTTTTGAAGTTCAGAGACTTTGCTCCTCTAGAGATGTAAATAAGATGCTCTCAATGGTGGGTCGCAGCCCCGCATTCAGGGCCCCGCGCAGCCGTCCCCATGGAAACCCGGCGCCCCGGCTGGGACGTGGGGGGCCCGGCCGGACNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCAGGGATGCAATGTCTGCCTCTGTTTCAG
Seq C2 exon
GGTTCAACGGGCTTTTGTGCCAGTTTGACATCGATGAGTGTGCCAGCACCCCCTTTAAGAATGGGGCCAAGTGCGTGGATGGCCCCAACACCTACAGCTGCGAGTGCACCGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002375:ENSGALT00000003754:8
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:
PF0000822=EGF=PD(16.1=12.8),PF0000822=EGF=PU(80.6=64.1)
A:
NA
C2:
PF0000822=EGF=PD(16.1=12.8),PF0000822=EGF=PU(80.6=64.1)
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:
CGAGGGCGTCTACTGTGAAAT
R:
CACTCGCAGCTGTAGGTGTTG
Band lengths:
216-1540
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]