GgaINT1007241 @ galGal4
Intron Retention
Gene
ENSGALG00000013237 | BCAN
Description
brevican [Source:HGNC Symbol;Acc:HGNC:23059]
Coordinates
chr25:506153-506625:+
Coord C1 exon
chr25:506153-506297
Coord A exon
chr25:506298-506442
Coord C2 exon
chr25:506443-506625
Length
145 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGT
5' ss Score
10.24
3' ss Seq
CCTCTCCCCCCACCCCACAGTGC
3' ss Score
9.62
Exon sequences
Seq C1 exon
CTCTATGAGAACTGGCACCCGGGGCAGCCCGACAGCTACTTCCTCTCCGGTGAGAACTGCGTGGTCATCGTGTGGCACGACGGGGGACAATGGAGCGATGTCCCCTGCAATTACCACCTCTCCTACACCTGCAAAATGGGGCTGG
Seq A exon
GTAAGTCACGTACCCCCTCAGCAAGCTGGGAAAAAAAAAGGTTCTGACTGCTCGCAGCTCACCTGGGCTTGGGGTGGGAGCTGGTGGTGAGGCGGCGGGGCTCAGCGCAGCACAGGGATGTCCACCCTCTCCCCCCACCCCACAG
Seq C2 exon
TGCAGTGCGGACCCCCCCCCACCGTCAGCAACGCCCGCGCCTTCGGCAAACCAAAGCAGCGCTACGAGATCGGCTCCATCACGCGCTACCACTGCCGCCACGGCTTCGCCCCGCGCCGCTCCCCCATCATCCGCTGCCGTGAGGATGGCATTTGGGAACGGCCTCAGCTCTCCTGCCGCCCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013237:ENSGALT00000021615:13
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=0.048
Domain overlap (PFAM):
C1:
PF0005916=Lectin_C=PD(42.5=91.8)
A:
NA
C2:
PF0008415=Sushi=WD(100=91.9)
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:
GGTGAGAACTGCGTGGTCATC
R:
TTCCCAAATGCCATCCTCACG
Band lengths:
255-400
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]