MmuINT0051070 @ mm9
Intron Retention
Gene
NA
Description
NA
Coordinates
chr1:46268094-46270365:+
Coord C1 exon
chr1:46268094-46268243
Coord A exon
chr1:46268244-46270182
Coord C2 exon
chr1:46270183-46270365
Length
1939 bp
Sequences
Splice sites
5' ss Seq
TCGGTAAGA
5' ss Score
10.53
3' ss Seq
TTTATCCACTCTGCATGTAGACT
3' ss Score
6.9
Exon sequences
Seq C1 exon
GGACTAATGGAAGAAAACAAGGTTCAAATAACTGTTTTAAATCCCAAGTCTGTCACCATGGGCCAGCTTTATGGGCAGTTTGACTTGGTTTCCCACGAGTGGTCTGATGGGATCCTGGCTGTCAGCTTTAGAGCGTTCGCAGCTTCCTCG
Seq A exon
GTAAGAGTCTGTCTTCTTACATGTAGATTTTAAAAGGGTTATGTGTCCTGTGACCAGTATCTGATTCTTTCCCAGTTATTTACGTCTTAAGATATTTACTGAAAGCATGTTACTGGAGGCTTTGGTGGTATTTCTTTAAGGAATGATGGCAGCCCATACAAGGACAGCACAGACCATGTCCCTGGGCACCTCTGTCCTGGGGGTCCTTCACAGAACTCTTGGAAGTCAGGAGAGTGGATGATTCCAGTGATGTGGCACACAGTCTCTTCTCTGACATCATTTCTGCCTGTAGTTTGAGCTGCTGCCCTTGTTGTATCCTTGTTAGAAATACTTCAGAACAAAAATGTCCAGTGTTCCAGAACTTTCCATGTAGTATGGTTGGAAGAGAAGAGGCTGGACTTGACAGTTATTGAGGGACTGGGATCTCTTCTGTGCCTTGTTCTGTGCAGGTGACTGTCACAGTCATAAGCAGGGTCCAAAGTGCATGTGCTCAGGCCAGAATAATGTAAAATGAAGCTTCTAGACATGTAAACAGGCACATCATTTACATAGAAAGAGCCATGGGGTACCTCTGTGCAATGTGTCCTTACATAGCTTACATTACACTGTGTAGAAAGCTATGCCCTATGTACACTAAATCTCAGTGAGGTGCAGTACTCAAAACCAGTAGAGCAGGGTGAAAAAAGAAGTCCTTCAGACGATGAAGCTCAAGGTCACAGCAATGTCCCCAGAATGACAGTTGACAGGCACTGGCAGTGGAGAGTTCAAGGGAGTCATGGTCTCAGTGATCACCCAGAGCATAATGTAATCAGTACTCTTCCGTGCTGTCCTCCTGAGTTCCAAGCACACAAGTACCAGTTTCGGTGTGAACATAGGGTGCTGACCCTGGGGCAGCTCACAGTCCTATGGAGTTAACCATGGGGTCTGAGACTGTGGTAAGAAGGACTTAGTTCCATCACCACTGGAACTCAAGTAAGGTGACAGTGAACCAAACATAATTTGCATACATGACCAGGTAGAATTATAGGAACCAGAAAGGTGGTTATTTTCTGGACAATATGTAAGTATTTTTATATTTCATAATATTTGTCAGGCCATTATACTGACTTTGTATTATCGATACATCACTAGTACATATTATTACTGGTGTACAGAACTTTATGTGAATGTTATATTGATTTTCGCATCCTGCACAAGTGGTTCTCAACCTGTGGGTCACAATGTGTTTGTGAAGAAAATGACTTTTTCATAAGGATTGCCTAAAGCCATTGAAAAACACAGATATCTACATTATAACTCAAAACAGTAGCAAAATGACAGTTATGAAGTAGCAATGAAAGTCATTTTATGTTTGGAGTCACCACAACATGAGAAGCTATATTGAAGGGTCACAGTATTAGCAAGGTTGAAAAACATTGTCCTACACTAGTGTGTGTGTGTGAATTTATTTTGTGGAAGAAAACCAAAGTTTTAGCATAGTGCATAGAAGCCATTAACCTTATAAAAAACGTTAGGTAGAATTCATAAGAGTGATCTATTAGAGAATACTAAGAACAGGCATATTTAAATGAACATTTTGTTTTCCCTATCAATAGTATTTTCAGTTCTAATATTTTAAAAGCAGTTTACATGTATTTAGCATTGGAAACATTGAAAAGATTGAATCAAGTGAGGTATTAGAGTTTTGTATTGTCCATGGCATATGTAGACTTCTTCATCTACGCTTATGTATTTGTGTGTATGAGTGTGTATGTGTGTATGAGTGTGTGTGTGTGCTAATGTGCCTGCATGGATGGATACATGCACCTGCCTGTTTATAGTTCATTTTAAAGAGTACTGTTTTATCTTTTCATGGTAAAATAAATTATATTTCTAAATTTTGAAATATTATTGATCTGTTTCCTCCACTGCATTTGCCCTTTATCCACTCTGCATGTAG
Seq C2 exon
ACTCCAGACAGGAAGTGGTTAATCTTTGATGGGCCAGTTGATGCCGTGTGGATTGAGAACATGAACACTGTGCTGGATGACAACAAGAAGCTGTGTCTGATGAGTGGGGAGATTATTCAAATGTCACCACAAATGAACCTGATTTTTGAACCGATGGATCTGGAAGTCGCCTCTCCTGCCACT
VastDB Features
Vast-tools module Information
Secondary ID
-Dnahc7b:NM_001160386:32
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
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
Other Skipping Isoforms:
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGACTAATGGAAGAAAACAAGGTTCA
R:
AGGAGAGGCGACTTCCAGATC
Band lengths:
327-2266
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: