MmuINT0023892 @ mm9
Intron Retention
Gene
ENSMUSG00000026805 | Barhl1
Description
BarH-like 1 (Drosophila) [Source:MGI Symbol;Acc:MGI:1859288]
Coordinates
chr2:28770734-28771960:-
Coord C1 exon
chr2:28771830-28771960
Coord A exon
chr2:28771528-28771829
Coord C2 exon
chr2:28770734-28771527
Length
302 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
GTGTTTCTTCTGTGCCTAAGGGA
3' ss Score
5.96
Exon sequences
Seq C1 exon
GAGAGAGAGAGAGAGAGAGAGAAACAACAACAACAACAAAAAAGCCAGTCCTAAAGTAAAAGTGACCCAAGTTCGATTTTTTTTTTTTTAAAGGAAGTGGGGGTGGCGGCGAAGGCGCGCGCGGAGGACAG
Seq A exon
GTGAGAGCTGCGGTGGGAGCCGCAGGGCGCTGTCCACGGTGCTGGCGGGGCCGAGCAGGAGCTCCGGGGCCAGGTGGGGCTGCTCGATCCCGGGGCCGCTGTCGCTGTCCGCGGTGCTGAGGCCTCCAGGTGCGCTCTGTTCTGCCTGCCCGTAACGCGGCCCCGGCCGGTTGCTATCGGCCGTGCTGACCCCTGCCCTGGGCTACCGTTTGCCTGGAGGAAGCGTGCGGTTTGGATTTTGTTTTTTCAAAAGACGATCTTTATTCAGATTCCATCAACCTCGTGTTTCTTCTGTGCCTAAG
Seq C2 exon
GGATCCTCGGGCCGTTCTTCTACCCTTTGGCTCTCCCCAACTTGGCGCGCCCTCCTCCCATTCCTCCTGACACTCCCACCACCACCCCCCCTCGGCTCGGCGGCTCGGCGCGGTGCTGCAGAAGACGCGTTGAGCCCTTTTGGATGTAATGCGCAGAGGAGGTTGGCCCAGAGCTCCCGGGCTCCCCCAAGGCTGAACTCCGTCCAAGGTGCCCACAGGCTCCCTGCCCGCCTTCCCCATGCCAGCCCGCAGCTAGGGGCAGGGGCAGCGGCGGCTGGGGTTGGGGGTGGGTGGGGAGCTTTTGGGGAGGACAGGTTGCAGCTTGGCTATGGAAGGCTCTAATGGCTTTGGGATTGACTCCATTCTCTCCCACCGAGCGGGCAGCCCCGCCCTTCCCAAGGGGGACCCCTTGCTTGGGGACTGCCGTTCACCCCTGGAGCTGAGTCCACGCTCAGAGAGCAGTAGCGACTGCTCTTCACCAGCCTCGCCCGGAAGAGACTGTCTGGAGACCAGTACCTCGCGGCCTGGTGCAGCATCTGGCCCAGGTTTGGACTCTCACCTGCAACCGGGGCAGCTTTCAGCCCCAGCCCAGTCGCGAACTGTCACCTCCTCCTTTCTGATCAGGGACATCCTTGCTGACTGCAAACCTCTCGCGGCCTGTGCACCCTACTCTAGCAGTGGGCAGCCTGCAGCCCCTGAGCCTGGGGGCCGCCTTGCGGCCAAGGCCGGGGAGGACTTTCGAGACAAGCTGGACAAAAGTGTCAGCAGCGCTTCATCAGACTCTGAGTACAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026805-Barhl1:NM_001164186:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.801
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTAAAGGAAGTGGGGGTGGC
R:
TGTCCTCCCCAAAAGCTCCC
Band lengths:
358-660
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: