MmuINT0023920 @ mm9
Intron Retention
Gene
NA
Description
NA
Coordinates
chr17:35291737-35294152:-
Coord C1 exon
chr17:35292311-35294152
Coord A exon
chr17:35292006-35292310
Coord C2 exon
chr17:35291737-35292005
Length
305 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGT
5' ss Score
8.23
3' ss Seq
TGATGCTCTGCTTTCTCCAGCCG
3' ss Score
7.5
Exon sequences
Seq C1 exon
GAGCGAGACTCCTCCGGTACCCCCGCCCCCACCTTATCTGGCTAATTATCCAGGTTTTCCAGAGAATGGAACTCCTGGGCCCCCAATCTCGAGATTCCCTCTGGAGGAATCTGCTCCCCCGGGACCCCGCCCACTACCCTGGCCTCCAGGCAATGATGAAGCTGCCAAGATGCAGGCTCCACCGCCCAAGAAGGAACCCTCGAAGGAGGAACCGCCACAGCTGTCCGGGCCAGAAGCAGGCAGAAAGCCTGCCCGTGGAGGCCAAGGCCCACCACCACCACGGAGAGAGAATCGTACTGAGACTCGCTGGGGCCCCCGACCAGGCAGTTGTCGCCGTGGAATCCCTCCAGAGGAGCCAGGTGTCCCTCCTCGAAGAGCTGGGCCTATAAAGAAGCCACCACCACCTGTGAAAGTAGAGGAGCTGCCTCCTAAGTCCCTAGAACAGGGGGATGAGACCCCCAAGGTCCCAAAGCCAGATGCACTCAAGACAGCTAAGGGCAAGGTGGGCCCCAAAGAAACCCCACCAGGTGGAAACCTGTCTCCTGCACCTAGGCTTCGGCGGGACTATTCCTATGAAAGAGTAGGTCCTACATCTTGCCGTGGTCGGGGCAGAGGCGAGTATTTTGCCAGAGGAAGGGGTTTTCGGGGGACCTATGGGGGCCGGGGTCGGGGAGCCCGGAGCCGTGAATTCCGAAGTTACCGAGAGTTCCGAGGAGACGATGGGCGTGGGGGTGGTTCAGGCGGAACAAACCATCCTTCTGCTCCCCGAGGCCGCACTGCCAGTGAGACACGAAGTGAGGGTTCAGAATATGAAGAAATCCCCAAGAGACGCCGCCAGCGTGGCTCTGAAACAGGCAGTGAGACTCATGAGAGTGACCTGGCCCCCTCTGACAAGGAAGCCCCTCCGCCCAAAGAGGGAGTGCTTGGTCAGGTCCCTCTTGCCCCCCCACAACCAGGAGCTCCTCCATCACCAGCCCCAGCCCGATTCTCCACTGCCCGAGGTGGTCGTGTCTTCACTCCAAGAGGAGTACCATCACGCCGTGGCCGAGGTGGGGGGCGGCCCCCTCCTGTTTGCTCAGGCTGGAGCCCTCCTGCCAAGTCTCTGGTTCCAAAGAAACCTCCAACAGGTCCTTTGCCTCCAAGTAAAGAACCTTTGAAAGAGAAGCTGATCTCAGGGCCTCTGTCCCCCATGTCTCGAGCTGGCAACATGGGTGTAGGCATGGAAGATGGGGAGCGACCCCGACGGAGGCGACATGGCAGGGCTCAACAGCAGGACAAACCACCTCGTTTCCGAAGGCTGAAACAAGAACGTGAAAACGCTGCCAGAGGAGCTGATGGCAAGCCCCCTTCCCTAACCCTTGCAGCCTCTACCCCTGGACCTGAGGAGACACTAACAGCAGCCACAGTTCCCCCACCCCCTCGCCGCACAGCTGCTAAGTCTCCTGATCTGTCAAACCAGAACTCAGACCAAGCCAATGAGGAATGGGAGACTGCATCAGAGAGCAGCGACTTTGCCAGTGAGCGCCGGGGTGACAAGGAGACTCCCCCAGCAGCACTTATGACCTCTAAAGCTGTGGGGACTCCTGGGGCCAATGCAGGTGGGGCTGGACCAGGCATTTCAGCCATGTCTCGTGGAGACCTGAGCCAACGAGCCAAGGATTTGAGCAAGCGGAGCTTCTCAAGTCAGCGGCCAGGCATGGATCGTCAAAACCGGCGCCCAGGCACTGGGGGCAAGACTGGCAGTGGTGGTGGCAGTAGCGGAGGTGGTGGTGCAGGCCCTGGGGGACGGACCGGCCCAGGACGAGGGGATAAGAGGAGCTGGCCCTCTCCCAAGAACCGAAG
Seq A exon
GTGGGTAAGAGTAGATGGCTAAGTAGTAGTGTGGTTGCTGGGTTGAGGGTGGGTGCCAGGGAGTTAGAGTTTTTTTAGTAAGTCAGGCATCAGAAAGGCACTATATATCTTCCATCTTGGCAGTCAGCTAAAGAGTTAGCAGTCCCCATGCGTGTTTTGTTCTGGTTTTCTCAACACACTGTTGTGAACAGGAAGCTTGGAAAGGGTTTTATCAGGAGAAGATAGGATGCTAGTAGTGAAGCGACAGTAGATGCTTGACTTACAGAATTTAGTGAGCCCTGGAACTGATGCTCTGCTTTCTCCAG
Seq C2 exon
CCGTCCTCCTGAGGAGCGACCTCCGGGACTTCCTCTGCCTCCGCCACCCCCCAGCAGTTCTGCTGTCTTCCGCCTGGACCAAGTTATCCATAGCAACCCTGCTGGAATCCAACAGGCTCTGGCCCAACTTAGCAGCCGCCAAGGAAATGTAACTGCACCAGGGGGGCACCCAAGGCCTAAGCCTGGGCCTCCCCAAGCCCCTCAGGGCTCCTCCCCTCGGCCCCCAACCCGTTATGACCCCCCAAGGGCCAGCAGCGCTATCAGTTCTG
VastDB Features
Vast-tools module Information
Secondary ID
-Bat2:NM_020027:15
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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCAGCCATGTCTCGTGGAGA
R:
CAGAGCCTGTTGGATTCCAGC
Band lengths:
346-651
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: