RnoINT0140862 @ rn6
Intron Retention
Gene
ENSRNOG00000018845 | Snapc4
Description
small nuclear RNA activating complex, polypeptide 4 [Source:RGD Symbol;Acc:1309048]
Coordinates
chr3:3809407-3811142:-
Coord C1 exon
chr3:3810354-3811142
Coord A exon
chr3:3809518-3810353
Coord C2 exon
chr3:3809407-3809517
Length
836 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGG
5' ss Score
10.88
3' ss Seq
TGGCTTTTTTGATGTTTCAGAGA
3' ss Score
7.98
Exon sequences
Seq C1 exon
CCACCTGCAAGTGGGCAGCCCCCGGCAACCAAGTCCAGCCTGCCTGTTAGCTGGGTTCTCACAACTCAGAAGCTGCTCTCTGTCCAAGTGCCAGCCGTGGTGGGCCTCCCCCAGCCAGTGACGACCCCTGAGACCATAGGACTACAAGCGAAACAGCTACCTTCCCCTTCCAAGACTCCTGCTTTTCTGGGACAGCCTCCAGCTAGCACAGACACAGAACCCAAAGGACCTCAGGGCCAGCAGACACCACCCACACCTGGGCCTGAAAAGAAGGCTTTGGACTTAAGCCTGCTTTCCCAGGAAAGTGAGGCGGCCATCTTGACATGGCTGACGGGGAGCCAAGGTGCTTGTGTGCCCCCACTGGGAAGCAGGATGTCCTATCACCCCCCTTCCCTGTGCAGCTTGCGAGCACTGTCCAGCCTCCTCCTCCATAAAAAGGACTTGGAGCAGAAGGCTTCCTCTCTGGTGGCCGGCCAGGCAGCTGGGGCCCAACCTGAGCCCAAGGCTGGAGCCCTACAAGCTTCCCTGGAGCTGGTACAGAGGCAATTCCAGAACAACCCAGCCTACCTCCTGCTAAAGACTCGTTTCCTGGCCATCTTCTCCCTTCCTGCATTCCTGGCCACTCTGCCCCCCAACAGTGTTCCTACCACCCTATCACCAGCCATGGCTGTGGGTTCTGAGAGTGACAGTGAAGACTTTGGTGACCTGGAGCCGAGGGACGGGGCTACGCAGCTGGACTGCATGGCCTGCAGAGTGCGAGCAAACCTGATGGCCCCAGACCCTGTGCAG
Seq A exon
GTACGGACGCTGGGCTGCAGCCCCACTTTGGCAACAGGCAGAGGCCGGCAGTGCCATGTTTGCTTGTATGTTTGGCCTGCTGGGAGCGGTGAGCTGGGCAGGTGGAAGTTGTATAAAAGAGAAGGCTGTGGGTTTCTGAAGGAAGAGGAAGTGTGTCCCATCTGCCCAGTTGGGAAAGGGCTTCTTAACAAAAGTTGCCTCTCCTGGGCTGGGCATAGCAGGAGAGGGAGGCAGCCTTCTAATATGGCATACCCCACCCCACACACCTAAACTCAAGGGAGACCGGCCTGACACATGACCGTGGGGTGGGCTCAGGGTACAATGAATGGGTCAGTTGCCCTTGTTCCTGCTCTTGTGGGGACAGAGTTCCTCTCAGACATCTCTCGCTCACAGAGCTTGCCTGGCAAGACAGTCTTTCCCATAGGAGCCTAGGGACAAGATGTCTGGCCCCAATGAGTCCTACCAAGGCTCCTCCCTTGCAGAGGTTAGATATGTGGAGCCTTCTCACAGCTGTCACTCCTTTCCTGGCGGTGCTACCCTAGTTCCAGGGTGACCTGGGAATCTCTAGGATATATTCCTGCCTCTGCCTCCATCGGCCTGCACCTCAGAGCAAGAGGTGGCTCTCATGAATTTTAATGTTGGAGACCCTCCCTGAGGGGCAAACCTGCAGAAAGCTAGGACCTAGTGTCTCCCATGTAACTGTCCTGGGGGAGCAGCTGCCTGTCCCTGATGTTAGCATCGGGGTGGTAGTGGGGGCTGTCCTCAGGCCTCCCTTCCCATCCCTACCTGCTAGAGTCACTCTCATCTCCCCTGGCCTGGCTTTTTTGATGTTTCAG
Seq C2 exon
AGAGCTCCAAGTCCCAGTGCAGTGTCTGCTCCCTCCCACCTGGATGCTTCTGATGACCTCGATGACCTTGACGTGCTCAGGACTCGTCATGCTCGGCATTCCCGGAAATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018845:ENSRNOT00000061682:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.489 A=NA C2=0.740
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTACAAGCTTCCCTGGAGCT
R:
CCTGAGCACGTCAAGGTCATC
Band lengths:
358-1194
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]