MmuINT0149583 @ mm9
Intron Retention
Gene
ENSMUSG00000036281 | Snapc4
Description
small nuclear RNA activating complex, polypeptide 4 [Source:MGI Symbol;Acc:MGI:2443935]
Coordinates
chr2:26220140-26221956:-
Coord C1 exon
chr2:26221929-26221956
Coord A exon
chr2:26221558-26221928
Coord C2 exon
chr2:26220140-26221557
Length
371 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCA
5' ss Score
7.88
3' ss Seq
CTGGTTGTCTCTTCCTTTAGGCT
3' ss Score
10.45
Exon sequences
Seq C1 exon
GCATCCTCTAATGCCAAGAACAACACAG
Seq A exon
GTACCATATGCCGCTTCTGTCTCTCTCATGGTGGGACATGCCATGCATCTGAGCCACAGCCTTAGCAACACAGCCAGTGGTCCTGACAGTAGGCTAGAAAGGCCTGAACCTGCTTGGGCTTTCACCTTTGGGCTGCCACTGGGGGCTTGAGGGGATTATGCTGTGTCACATTAGGGTCCAGGCATGCTAGAGGTTTAGAAGCCAGTCTTTCATAGTCGGGCTGCTGCCTCTGGCATTGCTGCCCTCTCTGTGAACAGAGTGCCTTGGGTTGGGGGCCCATGTGAGCTGGAGCCTCACATGTGGGGTTGGTTGCTGGTGTCCCTGGGCACAGAACCTGAAGTTCTCATCAAGCTGGTTGTCTCTTCCTTTAG
Seq C2 exon
GCTGCCTCCCAAGCATGACGGGGGAACAAACTGCAAAGAGAGCCAGCCACAAAGGGCGCCCACGACTGGGGTCATGCAGGACTGAGGCTACCCCCTTCCAAGTCCCTGTAGCAGCCCCACGTGGCCTCCGGCCAAAGCCTAAGACTGTTTCTGAGCTGCTTCGGGAGAAGCGGCTCCGTGAGTCCCATGCCAAGAAGGCCACTCAGGCTCTTGGTCTCAACAGCCAGCTGCTGGTCTCCTCACCTGTGATCCTCCAGCCCCCTCTGCTGCCAGTCCCCCATGGTTCCCCAGTAGTAGGCCCTGCAACGTCCAGTGTAGAACTCTCTGTACCTGTGGCGCCGGTGATGGTCAGTTCAAGTCCTTCTGGCTCCTGGCCGGTGGGTGGGATCTCAGCCACAGACAAGCAGCCCCCCAACCTACAGACCATTTCCCTAAATCCTCCCCACAAAGGGACCCAGGTTGCAGCCCCTGCTGCTTTTAGGAGCCTAGCCTTAGCCCCCGGGCAAGTCCCCACAGGCGGCCATCTGAGTACTCTAGGACAGACCTCTACCACATCCCAGAAGCAGAGCCTGCCCAAGGTCCTGCCCATTCTTCGAGCTGCTCCCAGCCTCACTCAGCTGTCTGTGCAGCCACCAGTAAGTGGACAGCCCCTGGCAACCAAGTCCAGCCTGCCTGTCAACTGGGTTCTCACAACTCAGAAGTTGCTCTCTGTCCAAGTGCCAGCTGTGGTGGGCCTCCCCCAGTCAGTGATGACCCCTGAGACCATAGGACTACAAGCAAAACAGCTGCCTTCCCCTGCCAAGACTCCTGCTTTTCTGGAACAGCCTCCAGCCAGTACAGACACAGAACCCAAGGGACCTCAGGGCCAGGAAATACCACCCACACCTGGGCCCGAAAAGGCAGCTTTGGACCTAAGTCTCCTTTCCCAGGAAAGTGAGGCAGCCATCGTCACATGGCTGAAGGGGTGCCAAGGTGCTTTTGTACCCCCGCTGGGGAGCAGGATGCCCTATCATCCCCCTTCCCTGTGCAGCTTGCGGGCATTGTCCAGCCTCCTCCTCCAGAAACAGGACTTGGAGCAGAAGGCTTCCTCTCTGGCGGCCAGCCAGGCAGCTGGGGCCCAACCTGATCCCAAGGCTGGAGCCCTACAAGCTTCCCTGGAGCTGGTACAGAGGCAATTCCGGGACAACCCAGCCTACCTCCTGCTAAAGACGCGTTTCCTGGCTATCTTCTCCCTTCCTGCATTCCTGGCCACTCTGCCCCCCAACAGCATCCCCACCACCCTGTCACCAGACGTGGCTGTGGTTTCTGAGAGTGACAGTGAAGACCTCGGTGACTTGGAGCTCAAGGATAGGGCTAGACAGTTGGACTGCATGGCCTGCAGAGTGCAAGCAAGCCCAGCAGCCCCAGACCCTGTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036281-Snapc4:NR_033572:21
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.588
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:
GCATCCTCTAATGCCAAGAACA
R:
TTCTACACTGGACGTTGCAGG
Band lengths:
348-719
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
Other AS DBs: