GgaINT0139599 @ galGal4
Intron Retention
Gene
ENSGALG00000013237 | BCAN
Description
brevican [Source:HGNC Symbol;Acc:HGNC:23059]
Coordinates
chr25:499529-499919:+
Coord C1 exon
chr25:499529-499703
Coord A exon
chr25:499704-499791
Coord C2 exon
chr25:499792-499919
Length
88 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
CTTCCCCTCTGCTTTGCCAGGTA
3' ss Score
10.23
Exon sequences
Seq C1 exon
GGGTGGTGTTTCACTACCGTGGGGGTTCCACACGCTACACCTACACTTTTGCTGAGGCTCAGGAGGCGTGCACTGCCATCAGTGCCAGCATTGCCACCCCTGAGCAGCTGTATGCTGCCTATCTGGGCGGCTATGAGCAGTGTGATGCTGGCTGGATCGCTGACCAGACTGTCAG
Seq A exon
GTGAGCACCCCATGGTATGTTTCTGGCACACAATGATTCCCCTGTGCCACCCCTCAGCCACCATCATTCTTCCCCTCTGCTTTGCCAG
Seq C2 exon
GTACCCCATCCACACCCCCCGCGAGGCGTGCTATGGAGACATGAATGGCTTCCCTGGGGTGAGGAACTACGGCGTGGTGGACCCGGAGGACATGTACGACGTGTACTGTTATGCCGAGGACGTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013237:ENSGALT00000021615:4
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:
PF0768612=V-set=PD(6.6=15.3),PF0019312=Xlink=PU(60.4=98.3)
A:
NA
C2:
PF0019312=Xlink=PD(38.5=84.1),PF0019312=Xlink=PU(0.1=0.0)
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:
ACACTTTTGCTGAGGCTCAGG
R:
CATGTCTCCATAGCACGCCTC
Band lengths:
176-264
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]