MmuINT1005373 @ mm10
Intron Retention
Gene
ENSMUSG00000004892 | Bcan
Description
brevican [Source:MGI Symbol;Acc:MGI:1096385]
Coordinates
chr3:87997745-88000230:-
Coord C1 exon
chr3:88000103-88000230
Coord A exon
chr3:87997856-88000102
Coord C2 exon
chr3:87997745-87997855
Length
2247 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
TTTCCTCTTTCCTCTTCAAGTTC
3' ss Score
9.85
Exon sequences
Seq C1 exon
GAGGCTCCCGGCGAGCTGGCGCCCCTGTCTGGGTCCCGCGCGCCCGGCCCTGCTCGCGCCCGCGCATTGCGCCGCAGTCTCGGCTGCGGCTGCGGGACGTGCGGTGTGCGCGGAGGGGACCTCGCAAG
Seq A exon
GTGAGTGCGGAGGCCTGGCCCTATCGGTCGCTTGCTTGCTTGCTGTGTGACCTTGGGTAAGTTTCTTGACCTCTCTGAGCCAAAGGATCCGGGCGAGGGCGAGAGCGGGCCGCGATACTGGCTGCTGTGGGCGACCGAGACAGTGACCCACCGTAGCTTCCTGGGGTCCCCAGGCACTCGGGGGTGCGGTCGGCAGCGGCGCCTCTCTGAAGGTGGGCGCGCAGCGCTCTGTGCCGGCTTCGGCACCCTGAGCCACGCGTCTGCTCGCTCACTGTCCTCGCCGCGCAGCCTTCAGGAGCCAGGGGACGTCTGGGCTGCGGAGCGACTAAGGATGCCCGGGCTGGAGACGACAGGGGACTGCTGAGCTCCGGTCCTTGTGGTGGCTTTCCTCCGGGAAGTGTCACAGTAGCCACTCTTGGCCACTTGGATCAAAAATTCATGTCTCAGGGCAGTCGGATCCTCTGGCCTCAGGCTTCCTTCCTCATCCCGTGCTGCCCCAACACGGGTAAAAGAGGTAGCCACAGGGCCGGGCGGGCGTGTGAGTAGCTCCTGCTCCCAGCCTCCCCTCCTCAGAACGCTCCAGCACCTGGCTTACTTGCCAGCGGTAACCCGAGTGACTGCTCGCCCGGCCCGCTGCACAGCACAGGCCAGAGCGCTGCTTAGCAGGGGAGTCTGTCCTGGGAGGATCTAGGAGGACCGCTTAGGCTCAGGCTAGCGACTATGAAGGCAGACCGAGTGGGAGATGGAGCCAGTGAGAATAGGTATGGTCGGTAGGAAATCTTGCCTGACGTTGTAACTGACCCCCGGCTGCATCATTAGCCATGTAGTCCTGGGTCCCCGAATACTCCCAAGTCTGACTCTTTACAGAGTGTGTTCATTATCTGTGCAGCTTTCCTTCCTGAGGGCACAGTGACCTGGCTCCCGGTTTGGCTCAGAGTTAGCTCTAACCCTCTCTGGTCATCCACCTCACTTTCCCCGTGAGCCTGTATGCGCAATGAGATCTCAGAAAGAGAAACTGTTTCCAGAGCTGAGGGCCAGGGCGGGGGGGGGGGGGGGACGACTGGCCTCTCCCTGTACCCTTCTCCAGTACACTCCAAGTTGTAGGCTTTCACAAAAGATGGGTGGGGGAAGGAGCAACTGGATAGAGGCCAGACTGGCAGGGACAGGGTCTTTGTCCCAGCTGGCTTCTGAGCCAGGAGATCCGGTGGGAAAGCCCGTGCCAGGCAGAGGGGAATGGCTGAGAGCAAAGTGGGAGGGAGGGAGGGATGGAGGGGGCAGAGGATGTTGGGCACCAGGGGAGCTTCCTTACAAGTCCTGGTGGAGAGGAAGCAGAGGGAGAAGCCGCTGTTTCAGCAGGGTTCAGTCTAGGAGGCCCTCCTGGAAGAGGAAGGGTTAGGAAGGGAAGGTTGGAGCTTTACTGTGGGGGAAAGAAACTCCTGGTTGGCACCTGAGGGCGGGGAGGGGGGTGTTTGCCAAGGGGGTGAAGTAGGACCATAGTTGCGCTCCCAACCCCACCCCTGCGTCTGTGGGTTTGAGTCTCCAACCCCTAGAGGCTGCCTGGACCTGCAGGTGCCCAAGTCCCTCACACAGAATGATGTCTTTGCATCTCACCTACGCATGTCTTTCATACACAGGAACCCGTCTCTAGGTGACTTATAATTCCTAAGTATATGCATGCTGTTTAGGGAACAGTGACAAAAACCTCTGTATGTGTTCAGAACAGACTCTTTTTTTTTTCCTGCATGTTTGACGAGTAGCTGGTTTGGATGCATAGATTTTGAATACACGTGCACAGAGAGCTGATTACGCAGTACCACCAGCCACTGTGTTACAAGTATTCGCTGGCATCTGTTATGTGTCTGTTGCTGGCCTATGCACAGGGCATTTTCTGTCGTAGATTATAAATAGGTAAGTAGGTAATAGACAGTGGCAACTGTGTGTAGATGACAGCTAGACAGGTAGACAGACAGACAGATCACTCAAGCATACAGCCCCATCAAAATGCGTAAGGTGCTAATGATGGTGCTTCCCCCCCCCCCCCCCCAGTTAAGAAGACACAGACTCAGAGAGGGTAAGGAACTTGGCTTAGGTCACACAGTGAGTTGACTGGGCACACCTCTTGGTGCTTGGAGATAGGAATCAGAAACAGAGTTAGGGGTGATTCTAGTATGTGCTACCTGCATGGTGGGACAGAGAACGGAGGAAGTCCGTTCCGCAGTCTAACAACTTTCCTCTTTCCTCTTCAAG
Seq C2 exon
TTCTTCCATCAGTGTGCAGAATGATTCCACTGCTTCTGTCCCTGCTGGCCGCTCTGGTCCTGACCCAAGCCCCTGCCGCCCTCGCTGATGACCTGAAAGAAGACAGCTCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000004892:ENSMUST00000090971:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0768612=V-set=PU(11.4=51.6)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types