MmuINT0023929 @ mm9
Intron Retention
Gene
NA
Description
NA
Coordinates
chr17:35287762-35289730:-
Coord C1 exon
chr17:35289563-35289730
Coord A exon
chr17:35287851-35289562
Coord C2 exon
chr17:35287762-35287850
Length
1712 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
CTTATCTCGCTTTTCTCCAGCAG
3' ss Score
7.31
Exon sequences
Seq C1 exon
GCCGTTCCCATATCCAGAGACTGGGAGCTGCTCCCTAGTGCTTCTACTTCAGCTGAGCCACAGCCCAAGAGCCTGGGTTCTGGGCAGTGTGTTCCAGAGCCCAGCCCTTCAGGTCAGCGTCCGTACCCTGAGGTCTTCTATGGCAGCCCTGGACCTCCTAATTCCCAG
Seq A exon
GTAAGCTCCATTATTAATCATAAGTCCCCTCCTTTTCTGCCTTTTGTTTGTTTTTGAGACAGGGCCTGGAACTTAGTATGTAGAACAAGCTGGCTTCAAACTCAGATTCACCTGCCTCTTCCTTCCAGGTGCTGGGATTAAAGATGTACCCCACCAACTTGCTCAGCTGGATAGTGGTTTCTTTTTGTTGTTGTTGTTTTATTAATTTTTTAAATGTTTTTGTTGCGTGCCCCGGTGCATGTGTTACACTGAGAGCAGAGTTCAGAGGACAACTCTGCAGTCCACTCCACCCCTACATGGATGGGTTACAGGTTACCAGGTGGCAGTAGCAGTGCCTTTGCCCCGTGATCTCTCACCTGCCCCGAAGTTGGTTAACTTATAAAACATTCCATTGTGTTCCATTTTTTCTTTTCCTCCAATGAGTAGGATGGGTGGTTTATTCCTTCCCCCCACCCCCAAGTTTTTATTTCATGTGCATGGGTGTGTTGTCTGCACCATATGTGTACAGTGCCCTTGGAACTAGAGTTAGAGGTGGTTATAGGCCATTAGCCACCGTGTGGATGGTAAAGATAGATGGGGTCTTCTGGGAGAACAACCAGTATACCTAATTAACCACCGGGAGATTTCTCTATTTATATTTTTGTAGATTTTTTTAAAAAGATTTATTTATTTATTATATGTAAGTACACTGTAGCTGTCTTCAGACACACCAGAAGAGGGAGTTGGATCTCGTTACGGATGGTTGTGAGCCACCATGTGGTTGGTTGCTGGGATTTGAACTCAGGACCTTCGGAAGAGCAGTCGGGTGCTCTTACCTGCTGAGCCATCTCACCAGCCCTTGTAGATTTATTTTTAATTATGCATATTCAGTGATTGCAGATGCTTATGGAGGCCAGAGGTGTCTAGTCTCCCTGGAGCTAGAGTTATAGATGGCTGTAGGCCTAGAGAGAGTATGCCTGTCCTTAGCTGGAGCTGTCCCTCCAGCCCATTCATGCCCTGTTCTTATATTTTATTTTGAGACATGGTTTTGCCAAGTTAATCAAATTGGCATTGAGCTTACTCTGTAGTATAGATTGGCCTTGAACTTGATGGTTGCCGCCTTTGACATCTGTCTTCCTAGGAACTGAGGTTCCACCAGGTTCCTTTTTCACTTGTGTCTAGGCCTTTGGCCAGTGGGATGGTGCTGCCCACTTTGGGGTGGGTGTTCTTCCTTTGGTTAACTCTCTCTCTCTCTCTCTCTCTCTCTCTTTTTCTTATTTGTTTTGGTTTTTTGAGGCATGGTTTCTCTGTGTAGCCCTGGCTGTCCTGGGTGCTCTATTGTCACCTATGTATTTCTCAATCCAGTTGATTACCCATCACACTGCATTAGAGACCAGACTTGGGACTCACATGTCAGTGAAGCCCTCTACCACTGTGCTGTATATATCCAGCCCAAGTTATCTTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTAAAGATTTATTTATTTATTATATGTAAGTACACTGTAGCTGTCTTCAGACACTCCAGAAGAGGGCGTCAGATCTTGTTACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGATTTGAACTCCGGACCTTCGGAAGAGCAGTCGGGTGCTCTTACCCACTGAGCCATCTCACCAGCCCCCCAAGTTATCTTTTCTTAACAAAGACACTGGAACTGCTCTTATCTCGCTTTTCTCCAG
Seq C2 exon
CAGGTCTCTGGGGGTGCACCCATCGACTCTCAGTTACATCCCAACAGTGGAGGCTTCCGTCCTGGGACACCCTCATTGCACCAGTACAG
VastDB Features
Vast-tools module Information
Secondary ID
-Bat2:NM_020027:23
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg19)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCGTTCCCATATCCAGAGAC
R:
GTACTGGTGCAATGAGGGTGT
Band lengths:
255-1967
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: