GgaINT0123651 @ galGal4
Intron Retention
Gene
ENSGALG00000000182 | FGA
Description
fibrinogen alpha chain [Source:HGNC Symbol;Acc:HGNC:3661]
Coordinates
chr16:20337-20914:+
Coord C1 exon
chr16:20337-20426
Coord A exon
chr16:20427-20626
Coord C2 exon
chr16:20627-20914
Length
200 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACC
5' ss Score
8.66
3' ss Seq
TCTTGTCATGACTGTTGCAGCCC
3' ss Score
6.72
Exon sequences
Seq C1 exon
GGCTGGGTGACACCAGTGAGCCTCCACTAGAATGGGGGAACCTGTATGACATGGAGGTGACTGAGCCCCAGGGGGCCATGGCCAAAGCAG
Seq A exon
GTAACCCCACATGGTGGCACTGGTGGCAATAGGGTAACTCAGGTGTTCACCAGCACTTGGTATCCAGGTTGTTGTGGTTGGATGTCTGGATAGTGAGATGGGTGGATGGAGGAGTGGATAGAGGGACAGACTGAAGGTTGAGTGCAGGGTAGATGGGTGCATAGGTAATTATACCTTGCATCTTGTCATGACTGTTGCAG
Seq C2 exon
CCCCATCAGAGGAGGAACCACCACAGCGGCCCCGCCTGGGCATGCTCACAGTCTCCCACGTGACTCCTAGCTCCATCCAGCTGGAATGGAGTGTCCTTGAGGGCACCTTTGACTCCTTCACGGTGCAGTACAGGGATGCACAAGGCCAGCCACAGGCACTTGCTGTCGATGGTGGGTCACGCACAGTGACTGTGCCCGGGCTGTCACCGTCCCGCCACTACAAGTTCAACCTGTATGGGGTGTGGGGGCGGAAGCGCATTGGTTTCATCTCCACTGATGCTGTCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000182:ENSGALT00000000238:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.742 A=NA C2=0.351
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0004116=fn3=WD(100=81.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
TGAGCCTCCACTAGAATGGGG
R:
AGGTTGAACTTGTAGTGGCGG
Band lengths:
306-506
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]