MmuINT0024239 @ mm9
Intron Retention
Gene
ENSMUSG00000063145 | Bbs5
Description
Bardet-Biedl syndrome 5 (human) [Source:MGI Symbol;Acc:MGI:1919819]
Coordinates
chr2:69499093-69501217:+
Coord C1 exon
chr2:69499093-69499155
Coord A exon
chr2:69499156-69501082
Coord C2 exon
chr2:69501083-69501217
Length
1927 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
TTCTTATTTTGTTCTTATAGAGT
3' ss Score
8.93
Exon sequences
Seq C1 exon
CGTTCAATAAAGATCAGAGATTCAAAATTTGGTTTGGCGCTTGTCATAGAAAGCTCTCAGCAG
Seq A exon
GTAAGATAGTCAACATTTTTACTAAACTGATAAACTTTTAACTATGTAACTAGGTTTTTAGTTGCTCTTCTATAGTAGTCAGTTTACATGCAAGGATATCAGCTATAACATGGAGATCGATGACGTGCTTGAAGTCTTATAGCAACTGTCTCCCTAGGAAGAGTCCTACCTACCTATGTGTGTTTGCCACCACAAACTCAGGCGCCTCCTGCCTCATAGATGTGAGTCACCACATCACACTCTACAGTTTGCTCGTTAGATGGATACAGTCATTATCGCTGTGATATTACTGTAATCATGACGGAAATCACTGCTAGGTCAACACATTTCATACATTACCTCAATCTAATAACTCCATGAAGTGGTGGCTGTCTTCTCCCTGCTCTTACAGTCCTGGGTCCTGAGGCCTGGAGGAGTTAGGAACCTCCCCCCACCCCACCCCACCCCTACCCCACCCACCCCCCACCCCCGGAATCTCAGAGCTGCCGGGGCCGGGGACGAGACTGTTTTCACCCCGTTTGTCTCGTTTACACTTTGAGAAACGGGGATTCTCAGACTGAACAGTATCCGGTTATAGGCTGCTGCGTACCCAGTATGCGGACGTACATCTGAGTCATTTAAAGTACTTTACTGATGGACATGAACTCCATGAGACCAGGCTGGTCCCGAGCTCTTGGTTCTCCTGCCGACCCCGTTTGAGTGCTAAGTCAACAGGCATGTATGGCCATATCCCAAATACAATTTTTTTTAAAGTGAGTTATTGGAGGCACTATTCTAGTTACTCTCCACCCCTGCACCTTATAGTCAACTCAAAAGACGGGAAAATTATAAAATTACTTCTAAATTTAAAAATGAATGTCAAGCCAGGTGTGGTGGCGCACGCCTTTAATCCCAGTACTCGGGAGGCAGAGGCAGACAGATTTCTGAGTTCGATGCCAGCCTGGTCTACAGAGTGAGTTCCAGGACAGCAAGGGCTATACAGAGAAACCCTGTCTCAAAAAACAAAAAACAAAACAAAAACAAACAAACAAAAACAAAACAAAAAATGAATGTCTATCCTCTCCCATTTACTAATTGTCCACTATGTCCCAGGATCTGTACCAACTGGATATACTTTTCCTGCTTAATAAAACCACTTGATAACCATTTCATAGTTTTTAGAAAGAGTAAGGGAAGAATATTGTCCACTATTAGCTATTATATTGATCTAGAATTGAACCCAAAAGTATATGCTTTTTTTTTTTTTTTTTTTTTTTTGGTTTCCTGAGGCAGGGTTTCTCTGTGTAGCCCTAGCCCTGGCTGTCCTGTGACTTGGTCTGTAGAACAGGCTAGCCTCAGACTCACGGAGATCCATCTGCCTCTGCTGGGATTAAAGGTGTGTCATCACCATCTGATCCTTTTACCTCTTACGCTATGCCACTTTTTTTAAAACACTCTTTCTGCCAGCCTATGGTCAATCATAGTCAAGATTCTTTCCAAACCCTTTAAGGACATAGCTTCAAAGAGACCATTTTGTAATGGACGGTCTATTTCTTCTCAAGACCTAGTCCAAGAAAAACCTCAGTTCCTTTGGCCAGCACTCTCCACTGTGTGTTTCTCACCTGGGAAGATCAGCTTGTGTTTAAATAGGAAGTTACATGTGATCTGGACACACATCCAACTATGAGGGAGGCAGGGCTCAGGGCAGAGTTAGAGACGAGCTGCCCCTGTGGTCCTGAGGCTGGTGGCTCTGCCGTGGATCCCTGGAGGCTCGCTGTCCTCCTCTGCTCTGTGTCTGCAATTTTCAGAGCAGAATTCATTTCTGTAGAGCAGCTTAGGCTGATGTTCCAAAACAAGGCCAGTTAGAGTGATTCCATCATATCCTGAACGTATTGTTCCTCAGGCTTTGGCTTGGTTTGGTTTTGTTTTTCTTATTTTGTTCTTATAG
Seq C2 exon
AGTGGAGGATACGTCCTTGGCTTTAAAATAGACCCTGTGGAAAAACTACAGGAATCAGTTAAAGAGATCAACTCACTTCACAAAGTCTATTCTGCCAGTCCAATATTTGGAGTGAATTATGAAATGGAAGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000063145-Bbs5:NM_028284:8
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(77.8=100),PF072896=DUF1448=PU(1.4=4.5)
A:
NA
C2:
PF072896=DUF1448=FE(13.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGAGATTCAAAATTTGGTTTGGCG
R:
TTTCTTCCATTTCATAATTCACTCCA
Band lengths:
182-2109
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: