GgaINT1007245 @ galGal4
Intron Retention
Gene
ENSGALG00000013237 | BCAN
Description
brevican [Source:HGNC Symbol;Acc:HGNC:23059]
Coordinates
chr25:502542-503330:+
Coord C1 exon
chr25:502542-502724
Coord A exon
chr25:502725-502898
Coord C2 exon
chr25:502899-503330
Length
174 bp
Sequences
Splice sites
5' ss Seq
CAGGTGACA
5' ss Score
5.49
3' ss Seq
CACTTTTGTCACTTCGACAGATA
3' ss Score
7.29
Exon sequences
Seq C1 exon
AGGATGGAGCAGCGCTGGAGTGGCCCCTGGGCTCTGTGCTGGGTGAGGACTTCGGGAACACAGCAGCAGAGAGTCCGGGCAGAGGGCAAGAGCCTGGACAGCCCATGAAGCCGAACGTGCAGACACTTTTGGTGGGCACAGAAGGACCCAGTGACGCTCTGTCCCCAGCGGTGGCTGCAGCAG
Seq A exon
GTGACACAGAGCCACCCAATGGGCATCCCCGACCACCTGTCTCCATTGTCCCCACGTGCCTCCCCGTCCACCTGTGGGAAGCTGTGGGGTGGCCAGCCCACAGCGGCAGGGCATCTGGGCAAAGGGACAGCCAGGTGACACCTCCGACCCGCGCCACTTTTGTCACTTCGACAG
Seq C2 exon
ATATCCAAGAGCCATCCCCCTCCATAGGCAGCCGTGGGGCCGGGGGGGCGAGCACCCCCATCCACACCGCGGGGGCTGCTGAGGACCCTGAGCTATCAGGAGATGTGACTGAAAACCCCGGGGCATCCCCGCTGCCCCCCGCACCGCCGCAGCTGCAGGATGATGGAGAGGAGCAGTCGGGGGCCCCGTGGCTCTCCTCACCCACAGCACCGGGGGATGGGGGCACAGCCCCAGCGACGGCGGTCACCCCATGGCACGCAGAGGTGCCCGGCAGCAGCGATGCACTGCAAACCCCAAGCACCGATCGCGGGATGCCCGCTGCATCTTCAGAAGAGGAGGAGGATGAGGAAGAGGAGGAGGATGAAGAAGAGCGCCCGATGCCCTCTGTTGCAACCGTGGAGGGTTTCCTTGCAGCCATTCCCGGAGAACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013237:ENSGALT00000021615:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.972
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAACACAGCAGCAGAGAGTCC
R:
CCCGGGGTTTTCAGTCACATC
Band lengths:
250-424
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]