MmuINT0149584 @ mm10
Intron Retention
Gene
ENSMUSG00000036281 | Snapc4
Description
small nuclear RNA activating complex, polypeptide 4 [Source:MGI Symbol;Acc:MGI:2443935]
Coordinates
chr2:26363638-26366037:-
Coord C1 exon
chr2:26364620-26366037
Coord A exon
chr2:26363769-26364619
Coord C2 exon
chr2:26363638-26363768
Length
851 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGG
5' ss Score
9.99
3' ss Seq
ACCTTGTCTCCCCTGGTCAGAGA
3' ss Score
7.13
Exon sequences
Seq C1 exon
GCTGCCTCCCAAGCATGACGGGGGAACAAACTGCAAAGAGAGCCAGCCACAAAGGGCGCCCACGACTGGGGTCATGCAGGACTGAGGCTACCCCCTTCCAAGTCCCTGTAGCAGCCCCACGTGGCCTCCGGCCAAAGCCTAAGACTGTTTCTGAGCTGCTTCGGGAGAAGCGGCTCCGTGAGTCCCATGCCAAGAAGGCCACTCAGGCTCTTGGTCTCAACAGCCAGCTGCTGGTCTCCTCACCTGTGATCCTCCAGCCCCCTCTGCTGCCAGTCCCCCATGGTTCCCCAGTAGTAGGCCCTGCAACGTCCAGTGTAGAACTCTCTGTACCTGTGGCGCCGGTGATGGTCAGTTCAAGTCCTTCTGGCTCCTGGCCGGTGGGTGGGATCTCAGCCACAGACAAGCAGCCCCCCAACCTACAGACCATTTCCCTAAATCCTCCCCACAAAGGGACCCAGGTTGCAGCCCCTGCTGCTTTTAGGAGCCTAGCCTTAGCCCCCGGGCAAGTCCCCACAGGCGGCCATCTGAGTACTCTAGGACAGACCTCTACCACATCCCAGAAGCAGAGCCTGCCCAAGGTCCTGCCCATTCTTCGAGCTGCTCCCAGCCTCACTCAGCTGTCTGTGCAGCCACCAGTAAGTGGACAGCCCCTGGCAACCAAGTCCAGCCTGCCTGTCAACTGGGTTCTCACAACTCAGAAGTTGCTCTCTGTCCAAGTGCCAGCTGTGGTGGGCCTCCCCCAGTCAGTGATGACCCCTGAGACCATAGGACTACAAGCAAAACAGCTGCCTTCCCCTGCCAAGACTCCTGCTTTTCTGGAACAGCCTCCAGCCAGTACAGACACAGAACCCAAGGGACCTCAGGGCCAGGAAATACCACCCACACCTGGGCCCGAAAAGGCAGCTTTGGACCTAAGTCTCCTTTCCCAGGAAAGTGAGGCAGCCATCGTCACATGGCTGAAGGGGTGCCAAGGTGCTTTTGTACCCCCGCTGGGGAGCAGGATGCCCTATCATCCCCCTTCCCTGTGCAGCTTGCGGGCATTGTCCAGCCTCCTCCTCCAGAAACAGGACTTGGAGCAGAAGGCTTCCTCTCTGGCGGCCAGCCAGGCAGCTGGGGCCCAACCTGATCCCAAGGCTGGAGCCCTACAAGCTTCCCTGGAGCTGGTACAGAGGCAATTCCGGGACAACCCAGCCTACCTCCTGCTAAAGACGCGTTTCCTGGCTATCTTCTCCCTTCCTGCATTCCTGGCCACTCTGCCCCCCAACAGCATCCCCACCACCCTGTCACCAGACGTGGCTGTGGTTTCTGAGAGTGACAGTGAAGACCTCGGTGACTTGGAGCTCAAGGATAGGGCTAGACAGTTGGACTGCATGGCCTGCAGAGTGCAAGCAAGCCCAGCAGCCCCAGACCCTGTACAG
Seq A exon
GTATGGATGCTGGACTGCAGCCCCACTTCCCGTGACAGGCAAAGGTCCCTGCAGTGCCTGCTGGGAGTGGTGAGATGGGCAGGTGGAAGTTGTACAAGGGAGAAGGCTGTGGGTTCCTGAAGGAGGAGGAAGCTTGTCCAATCTGCCTGGTTGGGAAAGGGCTTCTTAGCAAAAGTTGCCTCTCCTGGGCTGGATATAGCAGGAGAGGGAGGCAGCCTTCTAATATGACGTACCCCCACCCTACTCACATACCACACACCTAAACTCAACGTAGAGAGGCTGGCCTGACACATAACCCTGGGGTGGGCTGTAGGTACAGTGTAGGTCTGTTGCCCTTGTTCCTGCTCTTGTGGGTATAGAGTTCCTCTCAGACATCTCTTGTTCACAGAGAGCTGGCCTGGCAAGCCAGTCTGTTTCCCATAGGTGCTTAGGGACAAGATGTGTGGGCCCATTTCTCTGGCTACTTCCAAGGAGTCCTACCAAGCCGCCTCCCTTGCAAAGATTAGATGTGTGGAGCCTTCCCACAGCTGTCACTCCTTTCCTGGTAGTGCTGCCCTAGTGCCAGGGTGACCTGGGAATCTCTAGGATACATTCTTGTCTCTGCCTCCATTGGCCTGCACTTGAGAGTAAGAGGGTGGCTATCATGGAATTACTAATGGTTGGAGACCGTACCTGAAGGGCAAAACTGCAGAAAGCTAGGACCTGGTTCCTCCCCTGCTCTGTCCTGGGGAAGCATACCCTAGCAGCTGCCTGTCCCTGATGTTAGGGTGGGGGCAGTAGAGGGGGTTGTTCTGAGTCCTCCCTTTCCCATTCCCTACCCTGGCTAGAGCCACCTTGTCTCCCCTGGTCAG
Seq C2 exon
AGAGCTCCAAGTCCTGGTGAGGTTTCTGCTCCCTCCCCTCTGGATGCTTCTGATGGCCTTGATGACCTTAACGTGCTCAGGACTCGACGTGCTCGGCATTCCCGGAGATAGAGGTTGCTTTGAGCAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036281:ENSMUST00000114115:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.588 A=NA C2=0.861
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCAGCCTACCTCCTGCTAAA
R:
ACCTCTATCTCCGGGAATGCC
Band lengths:
347-1198
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