MmuINT0046025 @ mm9
Intron Retention
Gene
NA
Description
NA
Coordinates
chr3:36058444-36061649:+
Coord C1 exon
chr3:36058444-36058570
Coord A exon
chr3:36058571-36061553
Coord C2 exon
chr3:36061554-36061649
Length
2983 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGG
5' ss Score
9.08
3' ss Seq
TTCTCTTTGCCACTGACCAGGTC
3' ss Score
6.38
Exon sequences
Seq C1 exon
GAACAGTTGACCTTCAGGGATGTGGCCATTGATTTTTCTGGAGAGGAATGGGAGTGTCTGGATTCTGAGCAGCAGAATTTGTATACAGATGTGATGTTGGAAAACTATAGGAACCTCGTTTTCCTGG
Seq A exon
GTAAGGACAACCTCTCCACAGAATTCCTAACTTGGTACTAAAATTCATTTTTCTTGTGTGATGGTTTGTATATGCTCGGCCCAGGAGTGGCACTATTAGAAAATGTGGCCCTGTTGGAGTAGGTGTGTCACTGTGGCTGTGGCCTATAAGACCCTCATCCTAGCTGCCTGGAAACCAGTATTCTGCTAGCACCCTTCAGATGAAGATGTAGAACTCTAACCCTGCCTGCCTGGATGCTGCCATGCTCTTGCCTTGATGATAGTGGGCTGAACCTCTGAATCTGTAAGCCAGCTCCAATTAAATGTTGTTCTTGAAAGAGTTGCATTGGTCATGGTGTCTGTTCACAGCAGTAAAACCCTAACTAAGACAAAAGTTGATACCAGGGACTGGGGTCTTGCTGTGATAGTCTTAACCATGCTTTTGTTTGGAAGGATGTGGGTTTGGGGGCTTTGGATTTGGAAAGCAGTGGGATGCTTTAAATGGGGCTTAATAGCCCATCCTAGTAGGACTGTGGAAGACTTTGCTACTCAGAGTGAGTTGAATTGTCTGACCTGGCCCAAGAGGTTTCATTGGAGAATTTCAGTATGTGGGCCAGAGACAGTTTTTGTGGTATTTTGGTGAAGAATGTGGGTATTTTTGCCCTTGCTGAAGAAGAATCTGCCTGAGGTGAAGAGACTCAGATTAATTGCACTGACCAAGGAAGTTTCAGAAACACCCATCATAGACTTTGTTCTCTGGTTAAGTCTCATGAAGAACATTTTAAACAAGCATAACAAGCTGAGAAAGGAAAAATATAAAATATATGGTTTGAGTATTAAAGGGGCCCCAGGAAGTGAAATGGAGCTGAATCCTGTGTTCAAGGATAGTAAATTGAATTAAGGGATTTGACCTTAGGGCAAGATCTCACCCAGCTAAGTTTAGTTCCGGGCACGGTAGTACAATCCTTTAATCTCAGGCAGCCAAGTCAAGCAGATCTCTGAGTTCAAGGGCAGCCTAGAAGAGAGCAAGTTCTAGGTGAAGAAAAACTTAAATCCAGGCTTGTTGAACCACACCTTTAATCCTAGTGCTTAGGAGACTGGCATGCAGATCTCTGAGTTCAAAGTCAGTCTATGTAGCAAGTGCCAGGACAGCCAAACTTAGGCAATGAAGGAATCAGAAAACAGAAGGCTGGTGATAATGTAATAGAACAAGGGGGCCATGTCCTAGCCCCAGCAAGCAGCAGAACTCAGCAGCTTTGGTCATGTGGCTATGGCTTTAGAGTCCAGAATAAAAAGGACTACTGGGAAAATTGATGGTGGCTAGCTGGAGCTAAGAAACTAGGAAGAGACCAGCATCACTGAGGTGAAATCTTCTGGGAAGTGTTTTCTGAGAGCAGAAAGAAAAGCTTTGTTCCAGAGATAGCCAAGGTTGTACCTCATGCTGTAGCTGTATAAGAGTCACTCAGGTGGTACTGGTTTTGAAGGCATGAAGGGGTCATGAAGAGCAGCTGAGGCTTGGCACTATGGGAGGCTATGGAAGGTCATTGGTGAAGGTGCAGCCTCAGTTGCAGTTGATGGCTCAGGACTGAAGGGGTCATGCAAAGGATTTGAAGCTTGTCACCATGAAGAGAGCCTGTGAGAGGCAATTGGTGAAGCCTAGTTGCGGTGGAAATTGGAGATGCTAATACCAAGAGATGGTCACCAAGAGCAGCAGCAGCAGTGGAGTGGTCAACCTGAGCTTAGGGTGCTACAGAGGGCAGAGATGGAGAAGTAATGCCAGCCCTCTGGAGGAGCCCAGAAGATCATGTGTGGATTCCAGACATTGAAACAAGAAGCTGTGACGTTGAAGTTGCCTTGGAGACCACAAGATGTTCGAGATGCCAGAGCCATGGACTGAAATAGGGACTCTGAGGAAAGCTGCTAACAGGGAGTGGAACCAGCCCAGGAGAAAAGTTTGGTGTGGTCAACAAAGATGAAGACTGCTTTGACATCAGACGTGGAGATGCAGTTTGGAGTTGGCCCAGCTGGTTTCCTCTCTTGCTTTGGGGATTACATTTAAGTGATTGGACGAATCTCAGAAGAGACTTTGAACTTTGAACTTTTAACATTGTTGAGACTGTTAGAGACTTTGGGAACTTTTGAAGTTGGACTAAATGTATTTTACATTATGCTATGTTTAGGCCTCCATAGACTCATATGTTTGAACAAGCCTATAGGAGCCAGGGGGTGAAATGTGATGGTTTGTATATGCTTGGACCAGGGAGTGGCACTATTAGAAGACATGGCCTTGTTGGAGGACATGTGTCACTATGGGTGTGGACTATAAGACCCTCATCCTAGCTGCCTAGAAGCCAGTATTCTGCTAACACCCTTCAGATGAAGATGTAGAACTCTCAGCAACTCCAGCTCCTCCATGCCTGCCTGGATGCTGCCGTGCTTCTGCCTTGATGATAATGGACTGAACCTCTGAACCTATAAGCCAGCCACAGTTAAATGTTGTCCTTATAAGACTTTAATTGGTCATGGTATCTGCTCACAGCAGTAAAACCCCTAACTAAGACATCTTGCTTTTCTGAATATATCTTGGGAGCCCGTGTTTTCAGGGGAGAAAACAGGGGAGGTAGTATTGAAATAGGTAACAGATATTCATAGTTTTGAAATCTTTTTCCTCTATGTCGCTCTTGAGGTAATATATATCCCAAATTAAAATTAGTGGTAATTATAACCGCGAAGAGGCATTAAAATATTGTAATTTATACCTTAAAGTCCAATTATTCCTCCTTTGACTGTGACTTGGTAGTGGACAAAGGTGGAGCTCCGAATCTATAAATTGAATATATATTACTGTATGTCTGTAGGGAAACAACAATTGGAAAAGTAATGGTCTAAACTATTGTTATATGTTTATTACTTTTTTTTCCATATGAACATTATTCTAGAGCAGATATGTTACTAGTTATGAGGAAATATCAAGTAAATGCCATGTTCTCTTTGCCACTGACCAG
Seq C2 exon
GTCTTGCTGTGTCTAAGCCATACCTGGTTACCTGTCTGGAGCAAAGGAAAGAGCCCTGGAATGTAAAGACGCAAAAGACCATGGCCGTGTTCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
-D3Ertd254e:NM_001101478:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
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:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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: