MmuINT0028478 @ mm10
Intron Retention
Gene
ENSMUSG00000026933 | Camsap1
Description
calmodulin regulated spectrin-associated protein 1 [Source:MGI Symbol;Acc:MGI:3036242]
Coordinates
chr2:25934220-25935561:-
Coord C1 exon
chr2:25935462-25935561
Coord A exon
chr2:25934336-25935461
Coord C2 exon
chr2:25934220-25934335
Length
1126 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGG
5' ss Score
10.19
3' ss Seq
CTGTCTTTTTCTGCCTGCAGAGT
3' ss Score
11.5
Exon sequences
Seq C1 exon
ATAACTTGAGCCAAACTCACTCTGGCTCCAGCCTATCCTTGGCATCTGCAGCAACAACAGAACCTGAGAGTGTTTATTCGGGGGGCACACCTTCTCACCG
Seq A exon
GTAAGGAGGCTAAGAAGCTATGAAGTATCTCAGCGCTTGTACAGAGCAGGAGAGCCTTCCAGATCGAGAGACACTTTATAACTAGATCCACAACGTTTAGGAGAAAACCCAGCCCACCCCTACCAGGGCTAAGTGGCTTTTATGACATCGTCCCTCATTCTTTCTCCATGACCTCCCTGTCAAAAGTGTGCACTTCTTGTTGCATAGGAGTAAGTGGGTGACACTTAGCCCCATTACCTGCATACTTCAGTGAGTAACTCAGTACATTGCTTGTCAAACCGTCATCTGGCACAGCCTTAAGTGTGAATGTCTTTCTTGGGCTATGGGGTCTGGCAGGGACCAATGCTTTCGGGCTACCAGATCATTTAAAGTGGTATTTTTCATTTTCTACCAGGTATTAAAACCCCCTCTTTGTGTTACAAAGTAATTTTACAGGTGCTGTGGGTACCTGTTGTGGCATCAATGAATTCTTAATGTAGCTTTAGCTGGGAGCTCCTACATGGTGTTGACTTCTGGTAGCTGGGGCTTCATTTGAGTGGCATCTTGTGAATGCTGTCTGTGGAGAGGAGCTTTCATTCCTCCTTGATGTCTAGTGGGGTTTTGTCTCCTGGACTCTGGAAGACTCCTAGGCAGCCTTGAATGGTGCTTCTTTTAGTTTTGTTTTGGGAGTTGGTTGTCTAGCTAGATTCTACTCCATCCCTGACAGTTCACCGAGAGAGTGACCTTCTACACAGTTTTCACAGGCTTTGGCCTTGGTAGTTACTGTTCATGATCCAGCATCCCTGCATGTACAGCCCCAACCTGCTAGGAGTCAGAGAGTAGCTGAGGCATGCATAGGTTTTTAGATTAGCCCCATTTCAGCCCCTCCTTCCCTAGGTCTCATCCCTTGCTTGGTGGATGTTAGTCTCCTGTACTTGGTCCTCTGTACCTGAGCCAGCGTCAGTCATTCCCTGCACTCATGGTGACACCCTCTGGCAGTGGTTGACAAAGGCTCACCAAATCTTCTACCTTCACATAAAGGCCCTGCCTGTTGCAGCTGTGGGCATGCATCTTGCCCTGAATGTATGGTTGTCATGGAGAAGTAGGAGAACTGCAGCTTGAGCACCCTGTCTTTTTCTGCCTGCAG
Seq C2 exon
AGTTGAATCACTGGAAGCTTTACCTATCCTGAGCCGCAACCCCAGTCGGAGCACAGACCGAGACTGGGAGACTGCATCAGCAGCTTCCTCTTTGGCCTCTGTGGCTGAGTACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026933:ENSMUST00000114167:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.971 A=NA C2=0.613
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF086836=CAMSAP_CKK=PU(0.8=2.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGCCAAACTCACTCTGGCTC
R:
CTGTGTACTCAGCCACAGAGG
Band lengths:
209-1335
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