GgaINT1007239 @ galGal4
Intron Retention
Gene
ENSGALG00000013237 | BCAN
Description
brevican [Source:HGNC Symbol;Acc:HGNC:23059]
Coordinates
chr25:505236-505919:+
Coord C1 exon
chr25:505236-505394
Coord A exon
chr25:505395-505836
Coord C2 exon
chr25:505837-505919
Length
442 bp
Sequences
Splice sites
5' ss Seq
ACGGTATGT
5' ss Score
9.94
3' ss Seq
AAGCCCTCCTCTGCCCCCAGAAC
3' ss Score
8.27
Exon sequences
Seq C1 exon
CGCTGAAGAGGTGCAGCCCCAGCTGGGACAGCTTCCAGGGAGCCTGCTACAAGCACTTCTCCACCCGGAGGAGCTGGGAGGATGCCGAGTCGCAGTGCAGGAATTTTGGGGGGCATCTGGCCACCATCCTGACCCCCGAGGAGCAGGACTTCATCAACG
Seq A exon
GTATGTGGGGCCAGCCCAGCCTGCAGGGCATGGGACCCAGAATCCCTCCACAGTGGGTCTGAGGCTTGAAGACTGACCCAAAATTTGGCTCAAGGAGCAAGGCAGAGCCAAAGTTCCTCTCCCTATGCTTGGAAAGGCAGCTGGATGGGCAGACACTATCATTAATGTTTTTAGAAAAGGGGAAAGGAAAGGGGAAAGGAAGGGGGAAAGAGGAAAAGAAAGGAGAAAGGAAATATTGGCAATGGGATGGATTAATTGGTAGAAAGGACAGCTAGGAAGCGGGGTGGTCCAGGAGGAGCAGGAACAAACACGGGGACATCAGGGACAGGCGTGGGGACACTGGGGCTCTGCTGCCCTCTTCTGGCGACCCCCCCCCCCAATCCCTCCGCCCTGACGGCTGCCTGGGGACGGCGGAGCCCCCCAAGCCCTCCTCTGCCCCCAG
Seq C2 exon
AACAGTACCGCGAGTACCAATGGATCGGCCTCAACGACCGCACCATCGAGGGGGACTTCCAGTGGTCCGACGGCAGCCCCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013237:ENSGALT00000021615:11
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:
PF0005916=Lectin_C=PU(30.2=59.3)
A:
NA
C2:
PF0005916=Lectin_C=FE(25.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGAAGAGGTGCAGCCCCAG
R:
CCGTCGGACCACTGGAAGTC
Band lengths:
230-672
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]