RnoINT0140859 @ rn6
Intron Retention
Gene
ENSRNOG00000018845 | Snapc4
Description
small nuclear RNA activating complex, polypeptide 4 [Source:RGD Symbol;Acc:1309048]
Coordinates
chr3:3811167-3812209:-
Coord C1 exon
chr3:3812182-3812209
Coord A exon
chr3:3811805-3812181
Coord C2 exon
chr3:3811167-3811804
Length
377 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCT
5' ss Score
8.16
3' ss Seq
CTACTTATCTCTTCCCTTAGGCT
3' ss Score
9.98
Exon sequences
Seq C1 exon
GCGTCCTCTAATGCCAAGAACAACACAG
Seq A exon
GTACCTCATGCCACTTCTGTCTCTCTCATGGGGGGACATGCCATGCATCTGAGCCACAACCTTAGCAGCACAGCCAATGGCCCTGAGAATAAGCTAGAAAGGCCTGAAACTGCTTGGGTATTCCTTTCACCTTTGGGCTGTCACTGGGGGCTTGAGGGGGCTATGCTGCGTCATATTAGGGTTCAGGTTTTAAGCATGCTAGAGGTTTAGAAGCCAGTCTCTCATAGTCGGGCTGCCTCTGGCATCTGCTGCCCTCTCTGTGAACAGAGTGCCTTGGGTTGGGGGCCCATGAGGTGAGCTGGAGCCCATGTGGGGTTGCTGGTGTTCCTGGGCACGGAGCCTGAAGTTCTCATCAAGCTACTTATCTCTTCCCTTAG
Seq C2 exon
GCTGCCTTCTTCCAGGCATGCTGGATGAGCAAACTGCAAAGAGAACCAGCCAGAAAGGGCGTCCACGGCTGGGGTCCTGCAAGGCAGAGGCTACTCCCTTCCAAGTTCCTGTGGCAGCCCCACGTGGCCTCCGGCCAAAGCCTAAGACTGTATCTGAGCTGCTGAGGGAGAAGCGGCTCCGTGAGTCCCATGCCAAGAAGGCCACTCAGGCTCTCACTGCCCTCAGCAGCCAGCTGCTGGTCTCCTCACCTGTGCTCCTCCAGCCCCCTCTGCTGCCAGCTGCCCGCGGTTCCCCAGTCGTGGGCCCTGCAGCATCCAGTGTAGAACTCTCTGTACCTGTGGCCCCAGTGATGGTCAGTTCAAGTCCTTCTGGCTCCTGGCAGGTCGGTGGGATCTCAGCCACAGACAAACAGCCCCCCAACCTACAAACCATTCCCCTAAATCCCTCCCACAAAGGGACCCAGATTGCAGCCCCTGCTGCTTTTAGGAGCCTAGCCTTAGCCTCTGGGCACGTCTCCACAGGCTGCCCCCTGAATACTCTAGGACAAACCTCTACCACATCCCAGAAGCAGAGCCTGCCCAAGGTCCTGCCCATTCTCCCAGCAGCCCCCAGCCTCACTCAGCTGTCTGTGCAACCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018845:ENSRNOT00000061682:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.500 A=NA C2=0.643
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
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:
GCGTCCTCTAATGCCAAGAACA
R:
TCTACACTGGATGCTGCAGGG
Band lengths:
353-730
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]