MmuINT0037351 @ mm9
Intron Retention
Gene
ENSMUSG00000049550 | Clip1
Description
CAP-GLY domain containing linker protein 1 [Source:MGI Symbol;Acc:MGI:1928401]
Coordinates
chr5:124077303-124081178:-
Coord C1 exon
chr5:124080234-124081178
Coord A exon
chr5:124077420-124080233
Coord C2 exon
chr5:124077303-124077419
Length
2814 bp
Sequences
Splice sites
5' ss Seq
AAGGTTTGT
5' ss Score
7.81
3' ss Seq
CATGTAACTCGGTGTGTTAGGCT
3' ss Score
4.29
Exon sequences
Seq C1 exon
GTGGCTACCGTCTCAGAAAAGTCCCGAATAATGGAACTAGAAAAGGACCTAGCATTGAGAGCACAGGAAGTAGCTGAGCTCCGAAGAAGGCTAGAGTCCAGTAAACCTCCTGGGGATGTGGATATGTCTCTCTCCCTTTTGCAAGAAATAAGTGCTTTGCAAGAAAAGCTAGAAGCCATCCATACTGACCACCAGGGCGAGATGACTTCTTTGAAGGAACACTTCGGAGCTCGAGAGGAGGCGTTTCAGAAGGAGATCAAGGCTCTGCACACGGCCACTGAGAAGCTTTCCAAAGAGAACGAGTCCCTGAGAAGCAAGCTCGACCACGCTAATAAGGAGAACTCCGATGTGATAGCTCTATGGAAGTCCAAACTGGAGACCGCCATAGCATCCCACCAGCAGGCAATGGAGGAGCTGAAGGTGTCCTTTAGCAAAGGCATTGGAACGGACTCCGCTGAATTTGCTGAGTTAAAGACACAGATAGAGAGACTGAGACTAGATTACCAGCACGAAATAGAAAGTTTACAGAGTAAACAGGACTCTGAGCGGTCTGCTCATGCTAAAGAGATGGAGACCATGCAGGCCAAGCTGATGAAGATCATTAAAGAGAAGGAGGACAGCCTGGAGGCCGTCAAAGCGAGACTGGACAGTGCAGAAGACCAGCACCTAGTGGAAATGGAGGACACGCTAAACAAACTGCAGGAGGCGGAGATTAAGGTAAAGGAGCTAGAGGTTCTGCAGGCCAAGTACACTGAACAAAGCGAGGTCATTGGTAATTTTACATCGCAGCTCAGTGCTGTCAAAGAAAAGCTCTTGGATCTTGATGCGCTTCGGAAAGCCAATTCCGAAGGTAAACTGGAGCTCGAGACACTTAGACAGCAGCTTGAGGGAGCTGAAAAGCAGATTAAAAACTTAGAGACTGAAAGGAACGCTGAAAGTAGCAAG
Seq A exon
GTTTGTATTGGTATCTCCCATCCTTTTTTTCCCCCTTTTTCATTTGTTATTTTCATTGTTTGTTACTTTTAAGTTGAAGTCATTCATCTCCAAAACGCCTGATCTAACGTGAGCTGTGTGGTGCATCCACTCGAGTAGAATACTCTCTGAGGCTCTCAAGTGTGGCTTCTTCCGAGGAGAGCAGAGCAAGTAATGGCCAGCCGTGTGAATTTTAGTTTCCTATTATTTGGAAACTTTATCTGCTACTTTATCTCCTGGCCATGATGTAAACTCCTATTTAAGCTTATACTCTCTGTTTAAAATAGAGCTGACTTCCTAAAACAGTGATGTAAGGTTTAAGGGGGGGGGGGCTGAGGAGGAGGGAGGGAAGAAGGGAGACAGACACACAGACACACAGACACACGCTCAGGCTGGGCCTGGTAGTACATGCATATAATAAATACTTAGAATGATAAGGCAGGAAGTTTGCCAGTCCAGTTCCAGGCCAGCCTGGACTACATAAAGAGACCCTGTCAAAACAAAACAGAAACAATCAACCAAAACAAAAACCACACTGTAAGTTTATTTATTCCCTTTCTGCCCGCATCATTCCCTGGCTTATAGGGTTATTTCTGTATTAAAGTAGAACATGAGCTCTGGAGAGCTTCTTAACTGCTGTAGGAGTCAGCATGCTGTGCTAAGTAGTGCTCTCACCAAGTTAGGCCAGGAGCCCAGAGCTATTTGCATTGTTACCGTACTTTTATGCCACAATGAAGAATCCCATTGTGATAAGACGCGACCAAGACTACTTATAGAGGGAGGAGCTTATCCGGAAGTTGTAGTTCAGAGGGTGTGAGTCCCATGATCACCCTGGCAGGAGCTTGGCAGCAGGTAGGCAGAGGTGGTGCTGGAGCACGAGCTCCGTGAGCATGGGTTGAATGAGAGACTTTGAAACCTCAAAGCGTGCCCCCACCCCCCATCTATCATATACCACCTCTAACAAGGCCACTTCCTAATCCCTTTCAAAGTTTCACCAACTGGGGATTAGGTAGTCAATATATATGATCCTGTGGGGCCATGCTCATTCCAACCACCATACCATCTAACCTTTGCTTTCTGGAGGTGGCAAGAAAACTGAGGCTGGGTCTCACTGTGTACCCCAAGCTGCCCTTAAGTTCCTGGTCCTTTTGACTTTTCCTCTCAAGCGCTGAGATTACAACATGTCTCACTATGTCCCTGTCCCTTGTGGGCTTTATTTTTGTTATTTGTTTGTTTGTTTGTTTGTTTAATACAGGGTCTCACTTTGTAGCCCAGGTTGGCCTAGAGTTGGCTTTATAGCCTACGCTGGCCTTGAGTTCTCAGTGGTCCTCGTATTTTGGTCTTCCAAGTACTGGGATTACAACAGACATGCCTCCCCTCCTGGGGCTGTTCCTTTTTGTGTGTTGTTTGGGGAGTTGGGAGACTAGACAAGTGTGTTGTTTGTCAAGGATTAGGAAACTAAAGCGTCCACATTTCCTGTTATCCAGCCCTGTCAAATGTCAGCCTCAGTTCCCCAAGATACTCTTCCCCAGTCCTGCCCCCAGTGGAGGCTCTGGGACTGATGATGAACGGCTTTTGTGGAAGAAGCTGTTCTATTGACAAAGAAGAAAGGGCTGTGGTAGCTAAATGAGGACATGAAGACAGATGAACAGCAAAAGTCTGCTAAGTAACTGTACTTGAAAATAAGCTAGCTATAGGAAAAGTCTCTCTAAGGTGGTTCTGAAGGAGCAATAATAAAAAGCAAGTTAGCTAGAATAGAGTATTGGGCTGATCATTGGGTCACCCTTTTGCATAAGGATTTAGTGAAAGCTGAGTTCTGACGGCTGTCCACTGGATCTTTAAAGGAAACTTTGAAATATTTTAAGCACACAAATTTACAGAACAATGTAAACTACCAGTACAATGTGCCCAGGGCCTGTCTGTGCTACAAACAGGCCCTACCACTTTTTTTAAACTGATAAGAACAGATACTACACTTGATCTTAGCCAAAAGGCCGAGAAGCGATCTACCACTTTTTTTAAATTCAGAAATGAACTTTACCAGGTAGCTCATTGAGGACGTAAATGCAGCACTGCCTTCTTTAGACCGAGATGGTTTTCAAATTTAGGGATAGAAGAGTAGTATATTTTGACCTTTTAAAAATAACCATCAGAACAGGGTGGTGGCGGCACACCTTTAGTGCCAGCACTGGGGAGGCAGAGGCAGACAACTCTCTGAGTTCCAGGCCAGCCCGGTCTACACAGCAAGTTCTGGGACAGCCAGGGCTACACAGAGAAACCCTGCCTTGACAAAGGGAAAAAAAAAAGAAAAACCATTAGAAGGTGGAGAGGCGCTCAGCAGTTAAGCATTGCCTGCTGCTGTTGAGGAGGAGCCAGGCTTGGTGTCTCGTTCCAGGGGATCCGACCCTGTCTTTTGGCGAGCTTCTGCACATATATGATGTACATAAACCTACAGGCGAGCACACACACACACACACACACACACATACAAATACAATTAACGTAACTTACTTACTTACAACACGCCTTAGCTAGGCATGTTGGCACACAGAGTTTGAGGCCATGCAGGTCTACATAGAGAGTTCCAGGACAAACAGGGGCAGTCATACCTACAGCTTTTTGTTTGAAAAGTCACAAAGCGAGAAACGACAAAAACCCCTCGTTCCAGTATTGTTTTGTTGTGTTTCTCATTATTATTATTATTATTATTTTACCATTTTATTTTTCCTTATCATTCTTTTTTGTTTCTTTTCTTTTGTTCCATTTGCTCATGTACCATGTAACTCGGTGTGTTAG
Seq C2 exon
GCTAATAGCATTACCAAAGAGCTCCAGGAGAAAGAGCTAGTGCTCACTGGTCTGCAGGACAGTTTGAATCAAGTCAATCAAGTGAAGGAGACTTTGGAGAAAGAACTTCAGACTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000049550-Clip1:NM_019765:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.395 A=NA C2=0.220
Domain overlap (PFAM):
C1:
PF0017016=bZIP_1=WD(100=12.4)
A:
NA
C2:
PF0157614=Myosin_tail_1=FE(15.0=100),PF057016=WEMBL=PU(7.9=30.8)
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: