GgaINT0020664 @ galGal3
Intron Retention
Gene
ENSGALG00000002722 | E1C8A1_CHICK
Description
NA
Coordinates
chr12:2306994-2307537:+
Coord C1 exon
chr12:2306994-2307108
Coord A exon
chr12:2307109-2307400
Coord C2 exon
chr12:2307401-2307537
Length
292 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCCG
5' ss Score
6.46
3' ss Seq
CAACAACCAGGGTGGCGCAGATT
3' ss Score
-5.27
Exon sequences
Seq C1 exon
ACTTCCTGCGGGAGTGCATCGTGGCCAATGGCACCAGTTATCGTGGCACGCGGGACACGACGGAGCGTGGCCTGCGCTGCCAGCACTGGCAGGCCACCACGCCCCACGACCACAG
Seq A exon
GTGCCGCTGTGCCACCGCTGCCCTGGGCAGTGTGGGGCGACGGGGAAGGGATGGGGACAGCGCTTTAATGGGGAATGGGATGGGGACAGCATGGGGTGATGGGAAACGGGGGTGGGTTGGGGGCAATGGGAACGGTACAGTGATAGGAAATGGGATGCAGCCCGCATGGGGAGCGGGATGGACACAATATGGGGCGGGGGGGAATAGGGTGGAGCCAGACTGGGAGCAATGAGGACAGCTCGGGGACACGGGGCACAGTGCAGGGGCAATGGCAACAACCAGGGTGGCGCAG
Seq C2 exon
ATTCCTGCCATCCCTCCGCAATGGGCTGGAGGAGAATTACTGCCGCAACCCCGACCGCGACAAGCGGGGCCCGTGGTGCTACACCGTTGACCCCAACGTCCGACACCAGAGCTGCGGCATCAAGAAGTGTGAGGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002722:ENSGALT00000004292:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.205 A=NA C2=0.106
Domain overlap (PFAM):
C1:
PF0002421=PAN_1=PD(1.2=2.6),PF0005113=Kringle=PU(42.9=84.6)
A:
NA
C2:
PF0005113=Kringle=PD(55.8=91.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTTCCTGCGGGAGTGCATC
R:
CGTCCTCACACTTCTTGATGCC
Band lengths:
252-544
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]