MmuINT0149585 @ mm9
Intron Retention
Gene
ENSMUSG00000036281 | Snapc4
Description
small nuclear RNA activating complex, polypeptide 4 [Source:MGI Symbol;Acc:MGI:2443935]
Coordinates
chr2:26218285-26219288:-
Coord C1 exon
chr2:26219158-26219288
Coord A exon
chr2:26218541-26219157
Coord C2 exon
chr2:26218285-26218540
Length
617 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
AAGAGTATCCTGTGTTTCAGGAC
3' ss Score
5.93
Exon sequences
Seq C1 exon
AGAGCTCCAAGTCCTGGTGAGGTTTCTGCTCCCTCCCCTCTGGATGCTTCTGATGGCCTTGATGACCTTAACGTGCTCAGGACTCGACGTGCTCGGCATTCCCGGAGATAGAGGTTGCTTTGAGCAGCAAG
Seq A exon
GTGAGTCCCTGGGGAGGCTGCCACCATGCAACCAGGAAGAGGCAGAGTTCAGATATGGGCTCCCTCCATCTGCTCTGGAAACACCTGAGGGATGTGGCACCAAGTCTGAAGGCTGAGCCTATAGGGATACTTGATGCTCCTTGTCCTCTGTCCTTCCCTACCTGAAGGACATGTTGCCCAGTGTGCCTCTTGGCCTTGGCCCTCCTCCCCTTTGCCTGAGTTTTATCCCCTTCTTTGCTGGGGTGTCAGCTCTCAGAGCACCCTCTGGCTGCTTTCCTGAGGTGGCACTGCTGACTCAGTGCAAGTCTTGGGGTGTTCACCACTTGCAGCCCATGAGCATAATTACCTGCAGTTCCTCTGACCACAAATCCCGGGCTCTACCTTGTTGCTTTCACTGTTGGGTCCCTGGGTGCAGGTCAGCAGGTGACCAAGGACATTGATGGGACTGAGGTGGTCAGGGCATTCTAGTTGTGAAGCCACCGCCATCCGCTGAGCTGTCTGTCCCCAGTGCAGTGCCAGCTCAGTCCTTGCTGCTCAGCAGCCCCATCTGTGTGGTCTGTCCTGACGTCTGGGGCCTGGTGAGGGGCAGGCACTGTCAAGAGTATCCTGTGTTTCAG
Seq C2 exon
GACAAGGCGTCAAGGGGTCCAGAATCCAGCTCTCACTAGGCAAGAGGCAGGGCCCAAGCCTGCCCAGAAGCAGTACACAACCCTCAGCAAGAAGACGGGAAGCCAGAAAGCTGCAGGCTGAGGACCAAGCTGTCGGTAGCGATCTACAGGCTGTGGTGATAGCAGTGGCCACGTGATCACAGGCTACCTGTTAACAGACTTGGGGCCGTGTATGTGAGGGAATAAAGGAAATGCCTAATTTTCACTTAAAAAGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036281-Snapc4:NR_033572:23
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.861 A=NA C2=NA
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping 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:
AGAGCTCCAAGTCCTGGTGAG
R:
TACACGGCCCCAAGTCTGTTA
Band lengths:
343-960
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: