GgaINT0125528 @ galGal3
Intron Retention
Gene
ENSGALG00000002855 | F1NBJ7_CHICK
Description
NA
Coordinates
chr17:7716950-7717287:-
Coord C1 exon
chr17:7717164-7717287
Coord A exon
chr17:7717051-7717163
Coord C2 exon
chr17:7716950-7717050
Length
113 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGG
5' ss Score
10.88
3' ss Seq
TGTGCTCTGTGTCCCCACAGGGG
3' ss Score
13.53
Exon sequences
Seq C1 exon
ATCATAGAGAACTGCCCCGTCACCGGCATCCAGGTCAGAACAGATGACTTTGGGGTGAAGAGGGTGCACGCAGTGGAGACAGCCCACGGGACCATCCAGACTCCCTGCGTGGTCAACTGTGCAG
Seq A exon
GTACGGATGGGACAGCTCTGCTTTGCACGACGTGAGCCAGGGGTGCACCAAGCCCACGACCCCCAGCTGATGTGCTCTGTGTGCCCCATCTGATGTGCTCTGTGTCCCCACAG
Seq C2 exon
GGGTGTGGGCGCGTGCCCTGGGCCGGCTGGCAGGTGTGCACGTGCCTCTGGTGGCGATGCATCACGCCTACGTGGTGACCGAACGCATTGAAGGTATCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002855:ENSGALT00000004499:4
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:
PF0126619=DAO=FE(11.4=100)
A:
NA
C2:
PF0126619=DAO=FE(9.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCATAGAGAACTGCCCCGTCA
R:
ACCTTCAATGCGTTCGGTCAC
Band lengths:
218-331
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]