MmuINT0024237 @ mm9
Intron Retention
Gene
ENSMUSG00000063145 | Bbs5
Description
Bardet-Biedl syndrome 5 (human) [Source:MGI Symbol;Acc:MGI:1919819]
Coordinates
chr2:69493556-69495049:+
Coord C1 exon
chr2:69493556-69493691
Coord A exon
chr2:69493692-69494953
Coord C2 exon
chr2:69494954-69495049
Length
1262 bp
Sequences
Splice sites
5' ss Seq
CAGGTATCT
5' ss Score
7.33
3' ss Seq
TGTCTGTCTGTCTTCTGCAGGGG
3' ss Score
12.3
Exon sequences
Seq C1 exon
AGCATATGAAACTTCTAAAATGTACCGTGACTTTAAGTTGAGAAGTGCAGTCATTCAGAACAAGCAGCTGAGGTTACTACCACAGGAGCATGTGTATGATAAGATCAATGGCGTATGGAATCTGTCCAGCGACCAG
Seq A exon
GTATCTATCGTGTACAGTACCTAGCCTTTTAGGTCTGTTTCAACAGCTGTTTCCTTCTCATCATTGGGGCTGCGTAATCGTTAGCGTTAGCACTGGCCAACTGGATAAGTTAGTGTTACAGCTTTAGACATGGAACAATATTCTCATCATTCATATTCTTTCTCTTTCTCTATTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGCGTCTCCCAGGTTGGCTCTAAACTCATGGTCTTCCTGCCTTAGCCTCCCAAGTCCTAAGATTATGAACGTGAATCATCACATCTGGCTGTAGTTTCGATCTAGTCAGTATTGAAGAGTCATCAAATATATCTGAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGACAGGTGGATGGATATGATAGGAGTATAAGATTTTACTCTAAGTTGCTTTAACTCCTTTGTTCAGGCATATCACAAGGTTTTTTCTGTTGTTTTTGTTGGTTTTTTTTCTTTACAGATTTATTTTATTTATATGAATACATTGTAGCTGCCTTCAGACACACCAGAAGAGGGCATCAGATCCCATTACAGATGGTTGTGAGCCACCATGTGTTTGCTGGGAATTGAACTCAGGACCTTTGGAAGAGGAGTCAGTGCTCTTAACTGCTGAGCCATCTCTCCAGCCCATATCACAAGTTTTGAATGATAATTATAGAAAGATCTAATACTTATGCTATGTGCCAGAGTCTATGCTAAAGTCTTTAAAAAGCTGAGGGTGAGGAGATTATTTATTCAAATCTCCATTTTACATTTTACAAACTACACCAAGAAGAATTGTGTGGGTCAGTGGAACACACATGCACACACACATGCACACGCAGTAAATTTTTTAACTATGTCCTCAGACAAATACACTGACTTTGATGTCTAACTGTTCTGATGTCCTATCCTGCTGCTTAATGACTGCAGGCCCAGGCATTCAGTCATGTGGTTGTGTTAGTTTGTAAACAGTGAGTCACTGCTACTCAATAATGCTAAATTCTTATGTTAATCTACTGCTGTCATAATGAAAATTATTCTGGGTCTTAGGAAACAAAGACTATTGCTTCTCAGCCTTTTTGCTAAGTTCAAGTGTGGAAACAAAGGCTAGGGGTACTAATAAGCAACCATTGATTTACCTCTGTCTGTCTGTCTTCTGCAG
Seq C2 exon
GGGAATTTAGGAACTTTTTTTATTACCAATGTGAGAATTGTGTGGCATGCCAATATGAATGACAGTTTTAATGTCAGCATACCATATCTGCAAATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000063145-Bbs5:NM_028284:6
Average complexity
IR-S
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:
PF072896=DUF1448=FE(13.4=100)
A:
NA
C2:
PF072896=DUF1448=FE(15.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCATATGAAACTTCTAAAATGTACCG
R:
ATTTGCAGATATGGTATGCTGACA
Band lengths:
230-1492
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: