GgaINT1007244 @ galGal4
Intron Retention
Gene
ENSGALG00000013237 | BCAN
Description
brevican [Source:HGNC Symbol;Acc:HGNC:23059]
Coordinates
chr25:501625-502724:+
Coord C1 exon
chr25:501625-502053
Coord A exon
chr25:502054-502541
Coord C2 exon
chr25:502542-502724
Length
488 bp
Sequences
Splice sites
5' ss Seq
CGGGTAGGT
5' ss Score
8.53
3' ss Seq
CCTTTCCTTGCCCCTTGCAGAGG
3' ss Score
10.38
Exon sequences
Seq C1 exon
AAGGGACAAACTCTTTCCCTGAGGCTGCAGGAAAATATCAAGCCAGAGAGCCCGAGGGCCTCCAGGAGATTGTTACAGTGGCAGAAAAGCTGGAGGAGCTGCAGCTGCCCAAAGCGCAAGTGGAGATTGAGTCGCGAGGGGCTATATACGCCGTCCCTTTCTTTAAGGACGTGGCTGATGCTGAGCTGGAAAAGCCAAGCCTGTCCCCCGAAGACACCCGGCACCCCCCAGTAGATGCCTCCTCGTCCTCAGCACGAGGACATCACCCATCCTCAGCCGCCCCTTTCCCCACAGCCCCAGCCGTCCCCAAGGCAGGCGTCCCGCATAGCTGTGCTGCACAACCAGGCAGCCCATCCCCTGCAGACCAGGACGGGGCGACAGGGAAAGGTGGAAGGTGCGCAGAGGCCAGGCAAGAGCCATCCCGCACGG
Seq A exon
GTAGGTCCAGCAGTGCTCAGGGCTGGGGCACAGAGAGCAGCAGCAGGGATGCAGGCACAGAGCTGTCCCGGCTCCATCTCACCGAGGGTGCACCCATGGCCTGGGTGCCGGTGTCCTGGTGTGGTGATGCCGGGCGTGGGGCTGTTGGTCTGTCCCTGCCATGCAGTTGTCTGTCTGTCTGTCCCCTGGCCAGGACAGCAGGGTGCAGTGGGCAGGGTCAGTCCCAGACCATGCTGTATTGGTGCCAAGAGGTGGCGAAGGGCCAAGCACAGGCGTGTTGTGGGACAGGAGAACGCAATGGCCAAGCTGGAGCATGGGGCTTGTACAGAGGTGGAAGCATCACACGGACCTGGGGCTGTTTCTGTCTCCTCAGACATCACTGTGCTGACGTTTCCCCTTCAGCTCTGCTCATAGCCGGCAGTGCCGGTGCCCGGTTCCTGGCTGGCTCCTGGTATGGGTGTCTCACTGCCTTTCCTTGCCCCTTGCAG
Seq C2 exon
AGGATGGAGCAGCGCTGGAGTGGCCCCTGGGCTCTGTGCTGGGTGAGGACTTCGGGAACACAGCAGCAGAGAGTCCGGGCAGAGGGCAAGAGCCTGGACAGCCCATGAAGCCGAACGTGCAGACACTTTTGGTGGGCACAGAAGGACCCAGTGACGCTCTGTCCCCAGCGGTGGCTGCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013237:ENSGALT00000021615:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.701 A=NA C2=1.000
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:
CAGTAGATGCCTCCTCGTCCT
R:
TCTGTGCCCACCAAAAGTGTC
Band lengths:
343-831
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]