MmuINT0036739 @ mm9
Intron Retention
Gene
ENSMUSG00000064302 | Clasp1
Description
CLIP associating protein 1 [Source:MGI Symbol;Acc:MGI:1923957]
Coordinates
chr1:120406783-120408799:+
Coord C1 exon
chr1:120406783-120406953
Coord A exon
chr1:120406954-120408751
Coord C2 exon
chr1:120408752-120408799
Length
1798 bp
Sequences
Splice sites
5' ss Seq
TAGGTAACC
5' ss Score
6.66
3' ss Seq
ACCCTTTTCCAAACTTCTAGAGT
3' ss Score
7.59
Exon sequences
Seq C1 exon
GCTCTACAGTTAGTACCAAATCTGTGTCGACGACAGGATCTCTCCAGCGATCTCGAAGTGATATTGATGTGAACGCAGCAGCCAGTGCCAAATCCAAAGTCTCCTCATCCTCAGGATCCCCCGCCTTCAGCTCTGCAGCAGCACTGCCCCCAGGATCCTATGCGTCCCTAG
Seq A exon
GTAACCAGGCTCCCTCCCATCCTGCTGCCCCATGACCCTGGCCTCGGAGCAGAGCTTACACAGCGCTTCCCTCTATAGCTGAGAGCAGCTTCACTCTTGAGGGATCTAAAGCATAAGTAACTACTCTCAAAGACAGTTCCTAGCGACTTGTTGTCCAGTGTCATGTCAATGTCCCTTTTCTCTGGAGTATCAGCCTGACCTGTAAAGACATGTGCTTGCAGGCTGTGTGGTCCTCATGTCCTTTTTCCTATAGCAAGTCCTGCCCATACCTAAGCCGCTGGCCATATTGCCAGCACTGGCTTTCCCCCTCCCCTGCTGGTGGGAACTGAGCAAGATGGCTCAGTGTGCCTTTAGGGTTTTTGTCGTTGAATGTCTCTTAGAATGAGGGTGACAGGAAGATTCTAAATGAATGTAATGAACCTTTAACCACCTTTAGCACAACTGTGCAGGTGTTCTATACTACATACTGCCCACACACTGCTCCCCAAAATTGTTTCTAATTACTTTCCAAATTTTGGGTATCTAAGATAATGATAGGTGTATTACTCAGTCTGTCAAGGCAGCACCGAAGACCTTTTCTGTGTCAGGCTAGTGATGTATTTCATTGTATTTTTGTAAATACCACGTTAGTCATTCACCCCCAAATCTGAGGACTTAGTTTAAATCATAACACTAGGACTGGGTTACTCACGTGCCCACTAGAGTATTTCAAGGTCACTGTAAAGCTAATCTTCTGAAGTGTTTTGACATTGGAAGCATGCAGACAGGACAGGACAGAGACAGTACCACTTGTTCACTGTCACCATGGGCAGGCTGTGCAAGCTCAGAGTCTGTCTCTCTGCCAGTGACCTTGTGGAGAGGTAGCCATCTGACTCAGGCACATGGTTGAGGATGGGTGAGATTACATGAAGGTCCTTTGTAAGTGATCACCCTGCAAGGTCGCAGAAAGAGCTGAAGTAAGAGCACTGCTAAGCTGAGACATGTATGTCCTGGAACCATATGTCCAGGCAGTCCTGTTCCCCTGATCTCAGATATTCTCTCGAAAAGAGGCTTAGTGAGGGCTCTCTTCTTCCTCGAGGTAACTACTGTTCCATTAATGTACAAGTACGAAGGTGCTGCTTTGTACTTTGTGGTCAAGGAAGAAGCCGCAGGTGTGCCTTCCCGTGGTGAACAAGTTAGATCTTAGTATTTGCCAGGGTGTCAATACTTTTGATCCACTTTTACTTTTGGTTTTTGTTTATTTGGTTTTATTTTTGTTTTGGAGACAGGGTCCCACTGTATAACCCTGGGTAGCCTGGAACTCACTATGTAGACCAGACTGGCCTCTAACTCAGAGATGGCTTGCCTCTGTTTCCCACAGATATACCTGGCTCCCCTTTAGTATTTTTAGTTAGCATTGCCTGACTGTTTTCATGCCAGCCTTGAGAGACTCTAGGGTGAGTACTTACTCGTATACATATGTGGTGTTTAGTTCAGGCCTCCGTAGATTCCCTCAGTGCTGATGAGAGGCCCAGGAGTTTGGTCTGGTGGCACATGAAGAACCCTTCAGACTCGCTGAGGACATTCTCTAAGCACAGTTTCCTCTCCAGACAAGGCTGCGGCATTGACTCTTCTCTCCCTTCCCCATAAGAATTCTACCTTTAGTTTCCTTGGTTTTGCCCCACCCCCACATGCTACTTCAGCAAAGAGTGAAGTAGCACGTAGTTCTGAGACTGTGCCCAGGTCCTACTTAGAGTGACAAGACACTTGCCTTGCAAAGTATAGCATTAAAGCTGATAACCCTTTTCCAAACTTCTAG
Seq C2 exon
AGTCCAGACACATGAGGGAAGACTTGGAGTACGTAGGCCTGGATGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000064302-Clasp1:NM_177548:19
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (disopred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAGTTAGTACCAAATCTGTGTCGAC
R:
CTGCATCCAGGCCTACGTACT
Band lengths:
214-2012
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: