GgaINT0116534 @ galGal3
Intron Retention
Gene
ENSGALG00000016841 | Q9I9K3_CHICK
Description
NA
Coordinates
chr1:143098719-143099062:-
Coord C1 exon
chr1:143099009-143099062
Coord A exon
chr1:143098746-143099008
Coord C2 exon
chr1:143098719-143098745
Length
263 bp
Sequences
Splice sites
5' ss Seq
ATAGTAAGT
5' ss Score
8.65
3' ss Seq
ATGTCTTTTTTTTTTCACAGGGA
3' ss Score
10.98
Exon sequences
Seq C1 exon
GGTGAAAGAGGTCCAGTAGGTCCCCCAGGTTTACCGGGACTGACTGGAAGCATA
Seq A exon
GTAAGTAGATTCTTCGTGCTTCATTCACTTGTTTCAACTTGATTCTTGAAATGTAGATAGTATTCTATGGAATTGTATAGATTATGAAATGTAAAATACACAATACTGAAGAGTAAGTCCCTGAGCAACCTGATCTTGCTGTGGATGTTCCTGTTCATTGCTGAGGAGTTGGGCTGCATTGTCTTCAGAGGTACCTTCCAACTCTAAGGATTCTGTGGTTCTATGAAGCAAATAACATCAAATATGTCTTTTTTTTTTCACAG
Seq C2 exon
GGACCCCCAGGACCTCCTGGAATTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016841:ENSGALT00000027197:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(28.3=100)
A:
NA
C2:
PF0139113=Collagen=FE(13.3=100)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]