GgaINT0144668 @ galGal3
Intron Retention
Gene
ENSGALG00000001842 | F1NFQ7_CHICK
Description
NA
Coordinates
chr28:2241178-2241881:-
Coord C1 exon
chr28:2241737-2241881
Coord A exon
chr28:2241439-2241736
Coord C2 exon
chr28:2241178-2241438
Length
298 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGC
5' ss Score
7.75
3' ss Seq
CCTCCCCGCTCCATGCCCAGCTG
3' ss Score
7.42
Exon sequences
Seq C1 exon
GCGCGAGCCCTCCGTCCGCGTGGTGCTGGGAGCGCACAGCCTGGAGCAGCCCGAGGAGTCCCAACAGGTTTTCGGTGTCGAGGAATCCATCGCGCATCCCCTCTACAACCCCCGGACGGTGGACAACGACATCCGCATGCTCAGG
Seq A exon
GTGAGCCCCGCGCCCGGTGCCGCGGGCTGGGCTGGGGACCGACACTAGGTGTCAGTGTGCTCCGGAGAAGCGCTGCCCCCGGGATGGATGATGCCCGCAGTCCGGGCACCCCAAAGCCTCCGGAGCGCACTGGTTCTATTTGGAAGGGCCGGGATACGGGAGCGCGCTGGGGGCTCAGCAGGGCAGTGGGAACCGGGCTAGGGGCGCAGGAGCAGCGGGGAGGGGCTCTGCCTTGGGGTCTGTGTGGAAGAGGAAGGGAGCCGTGCCCCCTCCCCCCCCCTCCCCGCTCCATGCCCAG
Seq C2 exon
CTGAACCACACGGCCACGCTGAACGCATTCGTGAAGCGCATCCGCCTGCCCCGGCCACGCATCGACCTGAAACCCGGCACCCTTTGCTCCGTGGTGGGTTGGGGGGACATTTCCAACTACGGCGAGAGGCCCATCCAGCTGATGGAGGCCAACACCACCATCGTCAAGAGGAGTCTGTGTCGGACCCTATGGAAGGGCCGTGTCTCGGGCAACATGCTGTGCGGGGCCAGCCGCAATGCCACGCTGCAGGGCGTCTGTGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001842:ENSGALT00000002851:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.061 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(25.5=100)
A:
NA
C2:
PF0008921=Trypsin=FE(45.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCCCAACAGGTTTTCGGTGT
R:
GAGACACGGCCCTTCCATAGG
Band lengths:
294-592
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]