RnoINT0140855 @ rn6
Intron Retention
Gene
ENSRNOG00000018845 | Snapc4
Description
small nuclear RNA activating complex, polypeptide 4 [Source:RGD Symbol;Acc:1309048]
Coordinates
chr3:3813858-3815290:-
Coord C1 exon
chr3:3814814-3815290
Coord A exon
chr3:3814123-3814813
Coord C2 exon
chr3:3813858-3814122
Length
691 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGC
5' ss Score
10.08
3' ss Seq
GTACTCGTCCCACCACCCAGAGC
3' ss Score
4.82
Exon sequences
Seq C1 exon
AAAAAACAGCATCTCCAGAAGAGGCGAGGGCAGAGGTCCCGTCACAGTAGCCAGTGGAGTTCCTGTAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGTGGCAGTGAGGACTATGGCGGTGGCAGCAGCAGCAGCAGCAACAGCAGTGAAGACTCAGAGGTAGAACTGGAGGAGCCTTTGCAGAATAGCAGAGCATTGGCTCCTCAACAGTACAGCGTGCCAGACATCGACCTGTGGGTTCCTACCAGACTGATCGACAGCCGGTCACAGAGAGAGGAGACAGGGTGCTACCCAGTACACCCTGCTGTCTCCTGCCGTACTCAAAATCACCACAAGGAAGGTTCTACCGTAGTCTCTGCTCCTGAGAGAAACCAGATGCAGGAGTGCTGTGAGACCCACAGCACTGTTCCCAGAGGAGTCCAGTCCCTGCACTCCTCAGACACTCACGGAGCAAGTGTGAAGGAGCCAGCCTGCAAG
Seq A exon
GTAGGCCCCGGTACAGCCTAGAATGTGAGCAAGGGGAGTGGTGGGTGCCCTGTGCTCTTAGTGGTCACCAAGGCTGACACTCTGGACAGCTCGGCAGTTTGGTTTCTGATCTGGCAAAAGCTTTGTCCTTTCATTCACTAGAATTGTTGCTTAGGGTTGGTTTCAGAGTTGTGCAATAGCAGTGGCCTTCATAAGAGCTGCAGCCTCCATTGTCTCCTAGTCATTTGCTTTAAAGGTTGTAAGGATATCTGCCTCAAGGCACATCTGAGTGGGCAGTTCCTCACCTCCAACTGCCGTGAGTTCCCGGAGGTGTCCTTGGGTAGTGTCAGTCCAACTTGCCTGCATCTTCCTGGTCCCCTCTGGACTGCACAGGCTGCTCTGCTGCTCTGCACTGGGGATTGCTGGAGAGACAGTGCAGTCAGCTCAGCCATGGTCCTGCCTGCCGTGGGAGCCAGAGCATCTCCCTTAGAGAGGGAGCTAAGCCAGGCCCTACTTGAGGACCATATTAACCTTACCCCAGAGTGCTTTCCCACATAGCAAGTGGGGTTAAACCTGCACAATGGCAGGTCTGTACCAGATCCTGCTGTAGCCAGCCAGCCAGCCTCACAGGGTCTCTCTTGATGTACAGCATGTGTTGAAAGTGCCCCTAGAGAAAATGCTGACGTTAATCAGTACTCGTCCCACCACCCAG
Seq C2 exon
AGCCACACACTGGTGAAGGAAAGACGGAGGCAGCCACCTCTGCCTAATTCACGCTCAGGGTCTGACCCTGGTAACAGTATGGCTGGGCCCCATCTACGGCGGCTGTGGCATGGAACTTTCCAGAATAAGCAGAGACGCAAGAGACAGGCTCTACATCGAAGGCTCCTGAAGCACAGGCTCCTGCTGGCTGTGATACCCTGGGTGGGTGACATCAACCTGGCTTGCACACAAGCTGTCCAGAGACCTGCAGCTGTACAGACTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018845:ENSRNOT00000061682:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.887 A=NA C2=0.584
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion 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:
AGTACACCCTGCTGTCTCCTG
R:
AGCCTTCGATGTAGAGCCTGT
Band lengths:
348-1039
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]