MmuINT0037366 @ mm10
Intron Retention
Gene
ENSMUSG00000063146 | Clip2
Description
CAP-GLY domain containing linker protein 2 [Source:MGI Symbol;Acc:MGI:1313136]
Coordinates
chr5:134500092-134503461:-
Coord C1 exon
chr5:134502526-134503461
Coord A exon
chr5:134500150-134502525
Coord C2 exon
chr5:134500092-134500149
Length
2376 bp
Sequences
Splice sites
5' ss Seq
CATGTAGGC
5' ss Score
2.82
3' ss Seq
TTACAGGACTGTTCTTTCAGGTG
3' ss Score
6.33
Exon sequences
Seq C1 exon
CTGACCACAGTGGCTGAGAAGTCTCGGGTGCTGCAGCTGGAAGAAGAGTTGAGCCTGCGGCGTGGTGAGATCGAAGAGCTGCAACACTGTCTCCTCCAGTCAGGCCCGCCACCCGCAGACCACCCAGAGGCCGCTGAGACTTTGCGGCTGCGAGAGCGGCTGCTGTCGGCTAGCAAGGAGCACCAGCGAGACAGTACCTTGCTCCAGGACAAATATGAGCACATGCTAAAGACCTACCAGACCGAGGTGGACAAGCTCCGGGCGGCCAATGAGAAGTACGCTCAGGAGGTGGCAGACCTCAAGGCCAAGGTCCAGCAGGCCACCACGGAAAACATGGGGCTCATGGACAACTGGAAATCCAAGCTGGACTCGCTGGCCTCCGATCACCAGAAATCCCTGGAGGACCTGAAGGCCACGCTGAACTCTGGCCCAGGCGCCCAGCAGAAGGAGATCGGAGAGTTGAAGGCCCTGGTAGAGGGCATCAAGATGGAGCACCAGCTGGAGTTAGGTAACCTGCAGGCCAAGCACGACTTGGAGACGGCCATGCATGGGAAGGAGAAGGAGGGCCTGCGGCAGAAGCTGCAAGAGGTCCAGGAGGAGCTGGCCGGGCTGCAGCAGCACTGGAGGGAGCAGCTGGAGGAGCAGGCCAGCCAGCATCGGCTGGAGCTCCAAGAAGCCCAGGACCAATGTCGCGACGCCCAGCTGCGCGCGCAGGAGCTAGAGGGACTGGATGTGGAGTACCGTGGCCAGGCTCAAGCCATCGAGTTCCTCAAAGAGCAGATCTCACTGGCTGAAAAGAAGATGCTAGATTACGAGATGCTGCAGAGGGCCGAAGCCCAGAGCAGGCAGGAGGCCGAGCGGCTGCGGGAAAAGCTTCTGGTGGCTGAGAATAGACTCCAGGCTGCCGAGTCCCTGTGCTCAGCCCAGCACAGCCAT
Seq A exon
GTAGGCTGCATTCGCTCCTGTGGGGCTCAGCGGGGATGGAGGGGCCGGGAGGGCGTGGCCTCTGCGCGCCAGTTCCAGAGCATTTTCCTTGTGCCTGGAGCTAGCCAAGGGGGGCTCAGAGGAGGAGGAGCTTCTGTCTCCCTCTGTCAGAGCCTTGGGAATCATCGGGACCACTGTAGACTGAGAGGACCCTACTTGATCCTTTGTGGGCTTTGAGAGCCATTGAAGGCGCCATTTTGTTAGGCCCTAAACTCTGATTGGCCGAGACTTGGCAAATGGCAAGTTCAAGGCCAGACTCAGTACCTTAGTGAGGTTCCGGTTCAAAGTTGTTTTTTAAAAAAGAGCTGAGCAGAGCACTAGAATGCTTCCCTAGGAGAACCTCAGTTCCATCTCCAGCATGACAAAGCAAATACACACCGTCTGTGGCTAGGGCTGCCCAGAGCCGCTTTTGCTCTCTGTACCTGGCACTCAGGTACCACCCACAAGAAAGGCACAGAAACTGTGCCTCCCAGATCCTTGTCTCATCAGACACCTATCCAGGGACACGAAGATGTCCCTTTAGCCTCTAGAAAGGTCACAGCCACCATGACCCGCTTTGTCCCAAGTCTAGAAATGCCTACCTTTATGGTCCTTGCCCCAGATGAGCATGCCCCGTTGGTCCCTGAGGGATGTCAGGGAGTGTAGAGAGCCCCGTTCGTTCTAGCAAGCCCAGAAGGATGTTTTAACTGGCTCTGTGCTCCATATCGTGCACTGGTCCATTTCGAGGTTTATTGTGTTTAACCATGCACAGATATGCACATGTTGCATACCCAATGCCCATGGAGGCCAGGGCTTCCTGTACCCTGGAGCTGGAGTTCCGAGTGGCTGTGAGCCACCTGGCTTGTGTGCTGGGAATTACACTCAAGTAATCTGCAAGCGCAGTGCACACTCTTAACTGCTGAACCGTGTCTCCAGCCCCCAGTAACTCATTTAAAATACCCTTACAAGGGGTCAGCTAGGAGCTTGACTCTCTAATCCATTCACGGTATCTCTCGCAGTGTGGTGTTTAGGGAATCAAGTATCTGTAGCTCCAGGTCTTAGAAGAAAAGACATCTTCCTGCCTTGTTTCTTTCTCTCAGGAAGGAACTTTTTTTTTTTTTCCTTATTTGTTTGTCTGAGATAGGGTCTTGCATAGCCCAGGCTGCCCTCAAACTCGCTCTGTAGCCGAGGAGAACCCTAAATTCTCTATCCTCTTGTCTTTAACTCTCAGGTGCTAAGATTACAGATCTGAGTCACCATACTCCACCTTGCTGATACATGTGTGTATGTATGTGTGTGCATGCTCACGTGTGTGCACATGCGTCTATGGTGTGCATATGTGTGGAGGTCAGAGGTCAACCTTTTTGTACCAACTTTTTATTTTTTTGGACTGGTCTGGAGCACGTGACATAGGTAGGCTAGGTTGAATGGTTGGCCACTCATCACCAAGGATCGGCCTGCTTCTGGTTCCCAATGCTTGGATTACAACTGTGCACCATTGTGGTGTCCAGCCTTTTTTTATGTGGGCTCTGGGGCCCAGACTCCAGCCCCACTGCTTGCCTTTTACCAAGTGAGTCAGCTTCCTGGCTCACCGGGTTTTCTTTTCCAATCAATGTTTTCTTCCTTGGCTTCTGAGTTTACTACTAAGTATTATGAAGAAGGCAAGGCAGTTAAGTCCCTAGATGAGCTGGCCCTAGATGGGCCATCCAGGCTCTGTTGTACACATTGAGTGCTTGTTTTATGATTGAAGAGCTGGGGGCGTGGCTCAGTGGTAGAGCCCCTGCCTAGAATCCCCCAGGGAGGGACTGGGGCATGGCTCAGTGGTAGAGCCCCTGCCTAGAATCCCCCAGTGAGGGGCTGGGGGCGTGGCTCATTGGTAGAGCCCCTGCCTAGAATCCCCCAGTGAGGGGCTGGGGGCGTGGCTCATTGGTAGAGCCCCTGCCTAGAATCCCCCAGTGAGGGGCTGGGGGCGTGGCTCATTGGTAGAGCCCCTGCCTAGAATCCCCCAGTGAGGGGCTGGGGGCGTGGCTCAGTGGTAGAGCACCTGCCTAGAATCCCCCAGTGAGGGGCTGGGGGTGTGGCTAAGTGGTAGAACACTTACCTAATATGAAAAAGGTCCCAAGTTTCACCCTCTGCTCCTTGCTCCCCAAAATAGCAGTTCAGGGGCAGCAGGGGAATTCTTACAAGGCAGCTGGAAGCCAAGTGGGAGCTTCCCTTTTCTCAAGGAGAGGGATCCAAGTGTGTCTGCTCCCCCTGCTGGCGCATTGGGTCCCTGCATCCCCAGGGCCCCTTTTCACAGGTGGAGGTGTGGCCTGGGTGGTATGGCAGGCATGTCCCCTTACAGGACTGTTCTTTCAG
Seq C2 exon
GTGATCGAATCCAGTGACCTTTCTGAGGAGACAATTCGGATGAAGGAGACTGTAGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000063146:ENSMUST00000036999:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.524 A=NA C2=0.683
Domain overlap (PFAM):
C1:
PF116003=CAF-1_p150=PD(12.1=7.4)
A:
NA
C2:
PF123293=TMF_DNA_bd=PU(19.2=70.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
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