MmuINT0036738 @ mm9
Intron Retention
Gene
ENSMUSG00000064302 | Clasp1
Description
CLIP associating protein 1 [Source:MGI Symbol;Acc:MGI:1923957]
Coordinates
chr1:120438252-120439923:+
Coord C1 exon
chr1:120438252-120438275
Coord A exon
chr1:120438276-120439678
Coord C2 exon
chr1:120439679-120439923
Length
1403 bp
Sequences
Splice sites
5' ss Seq
AAGGTACCC
5' ss Score
9.16
3' ss Seq
CTCCTCGTGGGACATTTTAGAAG
3' ss Score
1.78
Exon sequences
Seq C1 exon
CTGTTAGGAGACGCCAGGAGCAAG
Seq A exon
GTACCCGTGCTTTAACTTTTGTTTACAACTTTTTTTTTTCTGTTGCAAGTCTATTTCTTTTAGAATTTAGTTGAACGCAGCACAAAATGTAGTTGTAGTTAGAGACTCTGGTCTCAGTGTTTCTGGTAAGCATTCTGATTTGCTGCCGTGTGATGGAGTCCCGGCCCCTCTCATCCTTCTGGGAAGGTGCTCTGTTTTTATGTCACTCTGCTCCCTGTCCTTCCTGTGTTTTATTAACTCAATTTGTGTCTATTTTGTAATCATAACTTAATGAACAGATCTGTCGACCAACCTTTTCTTATTTTAGGAAATCTGGCTCATATGTGAGTGTAAATCATATATAGGTTATCATCTAAATCAAAACTATTTTTAAAGGTGCAAGGGGATGCTGGGAAGAACTTTTGCTGGGACAGAAGGCAGTACTTTCCTGAGCAAGCTGGGATTCAAAATAATTTGAATAGTTTGAAAATTAAAACTATTTGTGTGGCTTGAGCCAGTAACTGCATTTAGGAAACATATGTGCCAACCTTACCATACTAGGTATGGGTTTAACACACTGTCTTGTATTCAGAGTGTGAGAGGAGAATGAAGGGGGCTATTGTAGTCTACTTTAAAAGAAACCTATTGCCAGGCGTGGTGGCACACGCCTTTAATCCCAGCACTCGGGAGGCAGAGGCAGTTGGATTTCTGAGTTTGAGGCCAGCCTGGTCTACAAAGTGAGTTCCAGGACAGCCAGGGCTATAAAGAGAAACCCTGTCCAAAAAAAAAAAAAAAAAAAAAAAAGAAACCTATTGATGTTAAAAACCAAATGATGCTGTTAACTAAAATGGCTCATACAGTCTGCGGCCCTTTTGCATAGAATATCTCCACTACTAACAAACATTTCAACTGCAGACTTCTTAAGCAAGCATGATTGTTCAAGCAAGCACACCCACAGACCATGCTTAAGGGCTGCACATGTGAGCACAGCTGCAGTGAATTGTTGCTTTGTCCTTCAGAGTTTCATTAAACCCTTACACTAGTCTGCTGAGGCAGGTGTACTGGTTACCTTCCTTGAGAGGAGTCACCAAGGCAGAAACTGACACAGTTGTTCAGCAGTAATACTAGGATTGGCACCAAAATCCATTGGGCTGAAAAATCCCCTTTCCACCACCCCCATACATACACACTTTCTACAAGACAACAAATCCTTCTTCACAAAAATGTGCAGCATGTCACTTATGTCACCTACCTTGACACTTCTGTTTTTAATTCCCTAATTTGTAAGCACAGAAAATGTGTGTGTGTGTGTGTGTGTATGTTTCTTTTTATATTTAACTCTGCACTGTAGTTTTTAACGGATGAGTCATGACCGGTTCACCTTCCCACTTCTTCCTTCCCCTGCTCCTCGTGGGACATTTTAG
Seq C2 exon
AAGAAGCCTGTGAGAAGGAGATACGAGCCCTATGGAATGTACTCTGATGATGATGCCAACAGTGATGCCTCCAGCGTGTGCTCTGAGCGCTCATATGGCTCCAGGAATGGTGGCATTCCCCATTATCTGCGGCAGACTGAAGATGTAGCAGAGGTTCTCAACCATTGTGCCAGTTCCAACTGGTCAGAACGGAAAGAGGGGCTCCTGGGCCTGCAGAACTTACTGAAGAGCCAAAGAACACTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000064302-Clasp1:NM_029709:23
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=0.809
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF116403=TAN=PU(67.3=45.1)
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:
TTAGGAGACGCCAGGAGCAAG
R:
TCAGTGTTCTTTGGCTCTTCAGT
Band lengths:
265-1668
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: