GgaINT0139609 @ galGal3
Intron Retention
Gene
ENSGALG00000013237 | BCAN
Description
NA
Coordinates
chr25:893040-893507:+
Coord C1 exon
chr25:893040-893147
Coord A exon
chr25:893148-893307
Coord C2 exon
chr25:893308-893507
Length
160 bp
Sequences
Splice sites
5' ss Seq
GACGTGAGT
5' ss Score
9.22
3' ss Seq
TGTCTCCTGCTGTGGTTCAGCGC
3' ss Score
7.19
Exon sequences
Seq C1 exon
GTGGCTGCATCCCCAACCCCTGCCTGAACGGAGGGACCTGCATTGAGGATGGCACCCATCCCACCTGCCTCTGCCTGCCAGGCTATGGAGGGAGCAGCTGCGAGAGAC
Seq A exon
GTGAGTCCACAGGGCCGCTCAGCCCGTGGTCCTGCAGGCATCACTGTGCACAGAAATCTGTTTGGGTTTCTATTTTTTTTTTTTTTTGGCTTGTTCATGGGCTGGGCTCCACGGTGCTGACCCTGTCCTCTCTCCCCCCTTGTCTCCTGCTGTGGTTCAG
Seq C2 exon
CGCTGAAGAGGTGCAGCCCCAGCTGGGACAGCTTCCAGGGAGCCTGCTACAAGCACTTCTCCACCCGGAGGAGCTGGGAGGATGCCGAGTCGCAGTGCAGGAATTTTGGGGGGCATCTGGCCACCATCCTGACCCCCGAGGAGCAGGACTTCATCAACGGTATGTGGGGCCAGCCCAGCCTGCAGGGCATGGGACCCAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013237:ENSGALT00000021615:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.179
Domain overlap (PFAM):
C1:
PF0000822=EGF=WD(100=83.8)
A:
NA
C2:
PF0005916=Lectin_C=WD(100=59.7)
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:
GAGGGACCTGCATTGAGGATG
R:
GCCCCACATACCGTTGATGAA
Band lengths:
248-408
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]