MmuINT0037330 @ mm10
Intron Retention
Gene
ENSMUSG00000049550 | Clip1
Description
CAP-GLY domain containing linker protein 1 [Source:MGI Symbol;Acc:MGI:1928401]
Coordinates
chr5:123623213-123627410:-
Coord C1 exon
chr5:123627294-123627410
Coord A exon
chr5:123623271-123627293
Coord C2 exon
chr5:123623213-123623270
Length
4023 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGT
5' ss Score
10.47
3' ss Seq
ATCTGGTTCTTTTTCTCTAGAAA
3' ss Score
8.88
Exon sequences
Seq C1 exon
GCTAATAGCATTACCAAAGAGCTCCAGGAGAAAGAGCTAGTGCTCACTGGTCTGCAGGACAGTTTGAATCAAGTCAATCAAGTGAAGGAGACTTTGGAGAAAGAACTTCAGACTTTG
Seq A exon
GTAAGTACCTGGCAGATGGAGTCTGAATCTCAGCCTTCCTGGCCTTTTCCTGTTTAAAGGAACATTCTCCATTTAAAAACAAAACAAATCAAAACACTGCAGTTATTTCTCTACTTCTTCAAAAATATGGAGTTAAATTGAGTATATTAGCAGCTTGCTAATTACCTCCAGGAGAACTGTATCAAATGGAACTAGTAAAGGGAGGTGTTATTTTTCTTTTTTCTTTCTTTGTTCTTTTTAAATGCTCCCTTTTCTCCAGTGAAGCAGTGCCTGGCAATTATTGGCAGCTTAGTTTTACAAAACACAGAGACGCATCTTTCTTCCCAGGCACATCCAGCTCGGTCAGATCTCACTAGGAAGTATTTCCTATTACCCCCACCCCCCACCCCCACCCCCCCCCCTTCAGCATCTCCTTCCTGACCCTGGGCAGCGGCTGTACAGCTCTTTAGTGCCCTCTATTGGCGAGGTGTTCTATCGGCTTGAACTGTCTCTGGGTTGTATTCTGCCTTAGGAAATTGTATTTCCATTCGTAGGTTTTCTCTTAATTGCAAATTGTGTAATGGTACAAGGCTTTAATCGCAGCCCTCAGGAGGCAGAGGCCGACAGACTTTGAGATCCAGGCCAGTCTTGTCTACATACCAAACTTCAGACCATCCAAGGCCACAAAATAAGACCCTGTCTCAAAACAAACAAACACCAAACCAACTAATGCTCCAAAATAAACAAATCTTTTCACCCTCCCTCCCTCTTTCTTTGCCTTTTACACCATAGTTTGACCTTAATGGAGGGTAATAATTATGGACAGTCGCCATGGTACCTATGGGGGAGCTTTGGAGAGCCTAGGTAGTTGTCAGGAGCCTGGTCCCAGCTGCTCCACGGTTCCCTGTCACTGTGCCCTTTCACTGCTCACACTGGTGAAGATCATTTCTTCTGTGAGTGTCTGTGCCTTTTTTTTTTTCCATTTTTCCTTTCTGAAACAATGTTTCTCTGTTTCTGATCTGAAACTCACTCAGCTGTGTAGTCCAGGCTGTCCTTTAACACATAGCAATCCTACTGCTTCAGCCTTCTGAATGCTGGGATTATAGGCATGAGCTCAAATTCCTACTTTTAGAACAAGATTTTTTTAATTATATGTATGCATTTGCATTTATGGGTGGTGTGTGCACATTGACACACCTGTGGAGGTCAAAAGAGGGTGTCAGATATCCTAGAGTTGGAGTTACAGGTGGCTGTGGGCTTTCTGCAGTGGGTGCTGGTATCTAAACTTGGGTCCTCTGCAAAAAGCAGTAAGCACGAGCCCTCGTGACCACTGAGTCATCTCTCCAGCCCCAAATTTCTCCTTTTAAAAATAGCTATGCCGGGCGTGGTGGCGCATGCCTTTAATCCCAGCACTTGGGAGGCAGAGGCTGGTGGATTTCTGAGTTCGAGGCCAGCCTGGTCTACAAAGTGAGTTCCAGGACAGCCAGGGCTACAGAGAAACCCTGTCTTGAAAAACCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGCTATATTATTCAACACCAATTCAATGTAAATTTAAATTACTATGTTTAGTCCATTTTAAGTGCTCAGTTAGTTATTTACAAAAAGTTCTGTTGGATAGTTCTGGTATATAATAAACGTGGTGCATTTTAGGGTAAAATGGCCTGAGAATCTCTCATTCATATATATATATACATACACACACACACACACATATATATATATATGAATATATATATATTTCTTTTTAAAATAAGGTTTCTCTTTGTAGCTCCAGCTGGCCTGGAACATACTATGTAGATCAGGCTGGCCTTGACCTCACAGAGATACACCTGCCTCTACCCTCTGAGTGCCAACTCTAAGGGCATGTGCCATCACGTCTGGCTATTTCCTGATTTGGAGTCCTTTAAGTAAATGTTTCAGGGGCTGGCGACGTGGTAAAAGGAGCTCATTAGACAGAGATGTCGGCCTGAAGACCTGAGTTCGAGCCCTAGGCCCCTCAGCGTAGGAGGAGAGAACTGCTGCAGCAAGTTGTCTTCTGACTTTCACATGCTCACTCTGGGACATGTGCCCATACATGTGCACACAAATACAAAAATAGATAAATGTAATTTAAAAACAAAGGAAATAGGATCGAAGAGATGGCTCAGTGGTTAAAAGCAGTTGTTGCTCTTTTAGAAGACTAGAATTCAGTTCCCAGCATCCATGTCGGACAGCTTACAGCCATCAGTAACTCCAGTACCAGAGGATTTGACACTCGCCTCTGGCCTCCGGGGGCACTGCACACACTTAAGTGCACATACCTACATACACACCTACACATCATTAAAAATGATAAATTTTTTTGAGACAGGGTTTCTCTGTATAATCCTGACTGTTCTAGAACTTGCTCTGAAGTCAAGGTGGCCACAAATTCAGAGATTCAACTGCCTGTCTCCCCGATGCTGGGGTTAAAGGCATGCGCCATCATGCCTAGTGTAACAATAAAGCTTTAATAATGTTTCGAGTACCACATTCTGCTGCCCTCTCTTCTAAAACTCCAAGAGTTAATTTTTTTTAATTTGTTTTGCTTTGTTTAAAATAATGTAAGATGTTCCTCTCCATGCTGTTTGAGGAACAGGTGCCACCCGATGCCTAGCTTTGTGAGCCACACAGATGGGCACCCTGTAGGCTTTGCTGGCTTACAGCTCACGTGCTCAGCTTTTTTTTTTTTTTTTTGATTTATTTATTTTATGTATATGAGTACACACTGTAGTTGTACAGATGGTTGTGAGCCTTCATGTGATTGTTGGGAATTGAACTTAGGACCTCTGCTTGCTCTGGCCAACCCCACTTGCTCCGGCCCAAAGATTTATTTATTATTATAAGTTCACTATAGCTGTCTTCAAACGCACCAGAAGAGGGTATCATATCTCATTATAGGTGGTTGTGAGCCACCATGTGGTTGCTGGGATTTGAACTCAGTACCTTTGGAAGAGCAGTAGGTGCTCTTAAACACTGAACCATCTCACCAGCTCACGTGCTCAGCTTTTAATAGTCTCTGTTGGAGATACTCATTCAAAAAAAAAAAAAAACAACAACTCTCCTGGGGATGCTGGCAGGATAGCTCAGTGGCTAAGAGCACTGGCTGCACTTGCAGAGGATCTGGGTTTCTGTTCACAGCACCCACGTGGTGCCTCACAACCGTTGGTAACTCCAGTTCCAGGAGATCTGACATCCATTTCTGTGTATCTGATGTCCTGCGTGTGCACCAGGCATGTATGCATTGCGCATGCATGTATACATTGCACAGGCACACATACAGTGTATAGGCAGACATGCAGGCAAAACACCCATACACATAAAGTCAAATAAATCTTTAAAAAGATCTCTGTTAATGCCACCTCAAAATCTATCTCAGGGAAACCAGGAGAGCTCCTTTATCTTAGTTTGTTGCCACGTTGAGAACAGACCTTAAGTAGAAGGTGACAGATGGAGCGGTTCTGCCTAAAACATTGCTGATGCAGATATTAGGCTTGAGGTTCGTTCTGGTTTTTCTGGTTACTATGAGGGGAAAAACAGAACTCTACTTATTGTTCAGGCAGATTTCTTTGTTTTCCTTTTCCTGTTTCTTTTTCTTTTTTTTCTTTTTTCTTCCTCTTCTTCTTGTACTGGGGATTCAACCTAGGGCTTTGCCCTTGCTAGGCAAGAACTCTACCACTGAGCCACATCCCAAAACCTCTGGCAGGTTTCAGAGAAAAAGGCAGCTCTTAGAGGGTTGATTATGACAAGCATGTTCCTGCAACACACGTATAAATGTGAATGTATAGACTTAGATATATGTGCCTGGATGTACAATTGGGTACAGATATACATGCACACACAGTGCAAACCTCACTCGTGTGCATGTACATGTGTAGAATGCACGTGAGTCTTAATGAAGCTAGGTACAAGATGCATGTAGCATTGTAACTGATATGCACGTTTAGTCTTTGTCCCCTAAAGTCCTGGTATCATGAATATCTGGTTCTTTTTCTCTAG
Seq C2 exon
AAAGAAAAGTTTGCCAGTACTTCAGAGGAGGCGGTCTCTGCTCAGACAAGGATGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000049550:ENSMUST00000111566:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.215 A=NA C2=0.929
Domain overlap (PFAM):
C1:
PF0157614=Myosin_tail_1=FE(15.0=100),PF057016=WEMBL=PU(7.9=30.8)
A:
NA
C2:
PF0157614=Myosin_tail_1=PD(5.5=70.0),PF057016=WEMBL=FE(12.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
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
- 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