RnoINT0140869 @ rn6
Intron Retention
Gene
ENSRNOG00000018845 | Snapc4
Description
small nuclear RNA activating complex, polypeptide 4 [Source:RGD Symbol;Acc:1309048]
Coordinates
chr3:3819161-3819977:-
Coord C1 exon
chr3:3819813-3819977
Coord A exon
chr3:3819309-3819812
Coord C2 exon
chr3:3819161-3819308
Length
504 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAGG
5' ss Score
8.05
3' ss Seq
TTCTATCTGGCCTTGGGAAGACG
3' ss Score
0.19
Exon sequences
Seq C1 exon
TTTGAAGGAGCCCGCAGCGCAGAAGAGATCCGGAAGTTCTGGCAGAGCTCTGAGCATCCAAGCATCAATAAGAAGGAGTGGAGCACAGAGGAAGTAGAGAGGCTAAAGACCATCGCTGCCTCACACGGCCACCTCGAGTGGCACTTGGTTGCAGAGGAACTCGGG
Seq A exon
GTAAGGACTAGGACCTAGGAGACCTTAGAAGGCTGGGAAAACATGGGCTTCTGGACTTGGGTGGTACTCAGTCTCATACTGTGTAATTTGGTACACATGGCAAGCATTAGGAATTGTTTGACAAATTGTGCTTTTAAAGAAATTTGCCTCTTTCATTTTTTAACTTTAAATTCTATCTTGTCTGTGAAAATGTCACCATTTACCCCAAACTCTTGACACCTCTCCTGCTTCAGGATTCTGATGGGATTAACAACAGAACTGTCTATGGCCAAGTTTTCTTTCTATAAGCCATAGAGTCCTCTCTGAGCTGCTACTGTCCTGGGTCCCAGCCATGGCCTAGCAAGCTATCACCTGATAGGAGCCTGGAAGAGGAGAGTTGCCTGTGGCTCAGGCCCACCTGTCTCCTAGAAGCGCTCAGGTCTCCTGGCAGGCTGTTCTGGGTATTTCTGCTTGCGCCAGGTGAAGCCCAGTAATGCCCATTTGTTTCTATCTGGCCTTGGGAAG
Seq C2 exon
ACGAGCCGCAGTGCCTTCCAGTGTCTGCAGAAATTCCAGCAGTACAACAAAGCCCTGAAACGCAAGGAGTGGACAGAAGAGGAAGACCACATGCTCACCCAGCTGGTCCAAGAGATGCGTGTTGGAAACCATATCCCATACCGCAGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018845:ENSRNOT00000061682:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.055 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF139211=Myb_DNA-bind_6=PU(45.9=50.9)
A:
NA
C2:
PF139211=Myb_DNA-bind_6=PD(50.8=62.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTGAAGGAGCCCGCAGC
R:
TCCTGCGGTATGGGATATGGT
Band lengths:
313-817
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]