MmuINT0037343 @ mm10
Intron Retention
Gene
ENSMUSG00000049550 | Clip1
Description
CAP-GLY domain containing linker protein 1 [Source:MGI Symbol;Acc:MGI:1928401]
Coordinates
chr5:123580000-123582769:-
Coord C1 exon
chr5:123582720-123582769
Coord A exon
chr5:123580125-123582719
Coord C2 exon
chr5:123580000-123580124
Length
2595 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATG
5' ss Score
9.43
3' ss Seq
TTTTCTTTAAAAAAAATCAGATT
3' ss Score
2.99
Exon sequences
Seq C1 exon
GTAACACTGATGCTCAGGCGGAAGAGGATGAGAGAGCCCAGGAGAGTCAG
Seq A exon
GTAATGCTCTTCTATTACCTTCTGCTGTCTGCATGCCCATTTCCCAGAGTCACTAGGTATCTCCAGAGTATAATGCTGGGCATTAAAGAGTACATAGCAAAAAGCCTTCTGGTCTCCGCTGCTCATTTCCCACATGCTGACACTGTTCCCCGGGGCTCACCTGTTGCAGACATCTTAGGGTTTTGTTGTTTTTGTAGCTGTGGTGTGTGATAGCGCATCCCTAGCTCTGCCACTTGGAAGGCTGAGGTAGAAGAATCAGTGGAGTCTGAGGTCAGCCTGTGGGACACAGGAGCGCCCTGCCTCTCGCAAGCACACTCTAGTACCCTTGAGTTTTACCTTGTTTTGGTTTTGGTTTTGGTTTTGAAGACAGGGTTTCTCTGTGTAGCCCTGGCTGTCCTGGAACTCACTCTGTAGACCAGATCCACCTGCCTCTGCCTCCCAAGTGCAGGGATTAAAGAGGTGCCCACTACCACCTGACTTTTTTTTTTTTTCTTTTTTGAGACATGGGGTTTTATGCAGCCCTTATTGGCCTTGAACTCTGCTGCCCTGCCTCCCATGACTGAAGCACAGCTGCGTAGCACCACCCCAACGGCCCCCTCTGAAGTTGTTTGCTTTGTTTTAAGATTTATTTATTTGATGTATGTGAGCATGCTGTCACTGTCTTCAGACACACCAGAAGAGGGCATCAGATCCCATTACGGATGGTTGTGAACCACCATGTGGTTGCTGGGAATTGAACTCAGGACCTCTGGAAGAGCAGTCAGTGCTCTTAACCTCTGAGCCATCTCTCCAGCCTCCATTTTTTTTTTAAACATTAGTAGCATACCACCTAAATCATTCTATGCTTACCCTTTCTTTAGCTGTGTAGTATTCCATTGTATGGATGTACCATAGTTTAGTCAGTTCCCTTTTGGTGGACAGGACACTGGGATCTGTCTAAGCCTATATTAAAAGCCAGAGCTGTAAGGAATTCCTTTAACCAGCTTTCGGACTCCAGCCGACTCAGTAGTAGCTTTGTCTCAGTGTCTCTGGCGTGGTAAAGAATTAACATTGTTTTCTCTCCCCTTCCCTTCTGCTTCCGTCTGTTTCTGCTGCTGACGCCAACTCTTTCCCTCCCATCAGCAAATGGTTTGTTTTATGCTTCCTAATTTGTGTGCACTCGTGCGTGTGTGATTGTGTGCATGGTCCCCTCATCCCTGGAATGGAGCCTTACAGAATGACTTAGAGGATGCAACCTGCAAGTCAGATGTGGGGGGCTGGGGAGGTGGCTCAGTGGTTAGGAACAGTGGTTGCTCTTACAGAAGACTGGGTTCAGTTCCCAGCACCCACACAGTGGTCCACAACCATCCATAACTCCAGTTCCAGGGAATCCAGTGGCCCCCTCCTGACCTCCACAGCCACACAGGCACAACACTCATACACATAAATCTAGAATAAAAAAAAAGAAAGTCAGGGGTGGTAGTATATCCATGTAACCCCAGTATTCATGAGGCAGAGGCAGAAAGAGCTGTAGTAATTTGAGACAGCTACAGGGTAAGATCCTGTCTTTTAAAAAGAAGTAAAGAAGGAAAGTTCAAGGTGAATTGTGTTTGGGGTTTTGTTTTTTGTTTGTTTGAGGCAGGGACTAACTATATAGACCAGGCTAGCTTTAAAGTAACAGACAGGGCCTGCTCTGCCTCTGAGTGCAGGGACTAAAGGTGTATATCACACAAAACTTAATAGTCCGAGGCCAGCCTGGGATACTTAGCAAGAGTCTATTCAAAAACAGAAGGAAGAACAGCTAAAGTGTATGTATTCAGAGAGAGAAACTTTCCAATTCACAGAAATGAAACCTTTTACTTTGTAAAAGAGGGAAGAATGTTTTGTTTTTAGAGAACCCTTAAAAGACAGGAAGTGTTGGGGACATGTTACTTTTTAGTGGTCACTTTGCACTTTGCTCTTAGACCAAGTTATCCTTCCTGTATGTGTGGGAGCATGCCATACCTGTCCTCAGCAGAAGAGGGGCTTGGCCAGCTCTAGTAAGCTCCTATCTCTCTTCTGAAGACACCCTGGGTACACACGCACGCACACACAATCACACGCAAGCGCGCACGCGCGCGCGCGCGCACACACACACACACACACACACACACACACACGAAGGAAAAACAAACCAAGTATTCAGAAATGTGAGATTTTGACTGTGGATAGTATAAAGTGTTTTGTTTTCTTGGAAATTCTCAGTAGCATTTCACCAGTCCGCAGATTAGTGATTTGAGTGTAATGTCATTTATCTGCATGACAAGTGAAGTTCACCCATTCACAGCTACAAAGACTCAATGACATGAATTGAAAGTGTCTTTTGATACAAAATAGTTTCTTAGTAACAAACACTGAGGGATGGAGAAGGGAAGAAGGAAACCTCCGTGCCTCTCACTAGCTGTGATCTCCCGCCAGCTGCAGTTCACTTCCTCAGCGTCCCTGTCCCTGCCCTGCTGTGACACACGTTTGCAGCTGTGGTGTGAGCGTATCCTTCCCCACTTCTAGACACTGCAGCTGTGACAGGCTCAGATGTCCACATAGCTCACTGCTTCTCTTTTCTTTAAAAAAAATCAG
Seq C2 exon
ATTGATTTCCTCAACTCGGTAATAGTGGATCTTCAAAGAAAGAACCAAGACCTCAAGATGAAGGTGGAGATGATGTCTGAAGCTGCACTCAATGGCAACGGGGAAGACCTGAACAGTTATGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000049550:ENSMUST00000111566:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.908 A=NA C2=0.573
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
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
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types