GgaINT1007242 @ galGal4
Intron Retention
Gene
ENSGALG00000013237 | BCAN
Description
brevican [Source:HGNC Symbol;Acc:HGNC:23059]
Coordinates
chr25:506443-508583:+
Coord C1 exon
chr25:506443-506625
Coord A exon
chr25:506626-506709
Coord C2 exon
chr25:506710-508583
Length
84 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGC
5' ss Score
8.69
3' ss Seq
TGCTTCCTGTGTCCCCCCAGGGC
3' ss Score
12.55
Exon sequences
Seq C1 exon
TGCAGTGCGGACCCCCCCCCACCGTCAGCAACGCCCGCGCCTTCGGCAAACCAAAGCAGCGCTACGAGATCGGCTCCATCACGCGCTACCACTGCCGCCACGGCTTCGCCCCGCGCCGCTCCCCCATCATCCGCTGCCGTGAGGATGGCATTTGGGAACGGCCTCAGCTCTCCTGCCGCCCCG
Seq A exon
GTGAGCGTGCAGCCCCCTGCACCCCCACACCTCCTCTCGTGGATGGCTCTTCACTGGGGCTCTTTGCTTCCTGTGTCCCCCCAG
Seq C2 exon
GGCTGGCTCGGCACCCCGAGGACTGAGTGAGCTGTCACCTCCCCGGGTCCCAGAGCTGGCACGGGTGGGGATGGCACTGGGATGGCAGTGCAGCACCGCAGGGTGAGGGGCGTCCTGGCGGGTGCCCGCCCTCTGCTTGTTTTATATCTGTACAAAGAAACCCCAATAACTAAAGAGCCCCTCAAAAGGAATCGCCAGCGACTCGTGTGGTGTCTCACCTTGCACAGGGGCTGTTTGAGTCCTGGAATGGTAACAGAGTCAAAATCAAGGAGTGAGAGGGAGGGGTGTGAAGGCAGGTGACAGCTTGGACATGGCAGCATCACCTCAAGCTGCTGCCCCCCCCCCCCCCCCCCCTTTTGCAGTGGGACAGCAGTATGGGGATGGGGACGCTGAGGCTGTGTCCTGGACACGGCCACACTGCTGGGTGAATGCGTGCCAAGCCCCCTCCATGCTTCTGTGGGATGAAAGCAAGGAATTGGATGGCACTGAGCGGTGTGCCAGCAGGCACATGGGTGGGAGAGGCAGAGGTACACAGCCTCAAAACTGGGAGTGGGGGATGCACAATGGAACCGTGGGGACCAGGTCGATGATGGAACAGCCTGGGCACAGCGATGGCCCCCAAGCCACAGGCACAGCCCAAAGTGTCCCCATGTCGATGTGTCCCCACATTGTTTTCTCCAGCTGCATCACAAACCCAGAAACCCACAAGTGTGGTGCCAGGGACACCGATAGCACCAGGACACTGCGGGGGGAGTGCTTGAGTCCTTGGCAAGCCCCCCCCCCCACTGAGTGGCCAGGAGGTCCCAGCGGCAGCTTTACTGTCGCTTTATTAATTGAGAAAGCGAAACTCCATTAGTCACACTCGTTAATGCCTGGCTCTCCAGCATGCCTGCACCAGCTAAAGTCTGCATGACCATAGGAAGCGAGGCCAGGGCCAGGGGCGCACTGAGCTTGGGGGGCTCAGGGAGCCTGCTGTGCCCACCAGGGGCCGGACCGGACCCCCTCAATTCCTGGCATGGAAATGGCTCTGGATTCTCCATCAAGCCTTGAATGCCTACAAAACTCTGAGGCAGCTGAGTGCAGGGAGCAGCCCCATTAAATGCACAACCCCCTCAGATTCAGCCCCATCAGAGGGGATGCACAAACCCTCCACATTCAGCCCCATCAGAGGATGCATAAACTCCCCCAAATTCAGCCTCATCGCTCCATCAGAGGATGCAAGCACCACCCAAAACGCCCCAGAGACCCCTGTCCCACCTCCAGCTCTCCACTCAGGTGACGAGAGCCGGTGCCACCCCTTTGCCTCTGCCCACCTCTCCTATGTCCCCACGAAGCAGTAGGTGCCATAGGTCCGCAGCTCCTTCCTGGGGAAGCCAAAGCTGCGGACACCAGGCTCTGGCAGACCCCCGCAGCGCTGCCGGGGGGTGGTGATGGGGTATCGCACGCTTCCATCTGCCAGCCACCCTCCATCACAGCGATCCAGCCCCAAAAACTTCCATGCAGAGTAGAGCTGCCCCACTTTGGCAATGGTAGCACCGTGGTTGCGGCACGCTTGCCCGGCTTCCTTGAAGCTCAGGTGGCCTCGGATGAAATAGACCTCACCTAGGGACAGGTGGGAAATAATGGAGGGTGATGACTCCTTGAGCAGCCCCGGTGTCACCACACAGGGCTGGGGGATGCTGGAGGTACCTTGCAGTGCAGAGGTGAAGCAGAAGGCATCAAAGCGGTCCCGCTGCTTGTCCTTGGCCCCATAGCTGCGGATGCCTGGCAGCAGGAGGCGGCCGCCGCATGGCTCCCTTGAGTTGATGATGGGGTAATGCACGGTGCCATCCAGCACCCAGCCTGCATTGCACCAGTCCAGGCCCTCCATCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013237:ENSGALT00000021615:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.048 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008415=Sushi=WD(100=91.9)
A:
NA
C2:
NO
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:
CCAAAGCAGCGCTACGAGATC
R:
GGTGACAGCTCACTCAGTCCT
Band lengths:
172-256
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]