RnoINT0122128 @ rn6
Intron Retention
Gene
ENSRNOG00000056897 | RGD1559508
Description
similar to hypothetical protein 4930474N05 [Source:RGD Symbol;Acc:1559508]
Coordinates
chr16:12661727-12662336:-
Coord C1 exon
chr16:12662049-12662336
Coord A exon
chr16:12661924-12662048
Coord C2 exon
chr16:12661727-12661923
Length
125 bp
Sequences
Splice sites
5' ss Seq
CTGGTAACT
5' ss Score
5.45
3' ss Seq
CCACTTTGATCTTTTTTCAGGAT
3' ss Score
10.18
Exon sequences
Seq C1 exon
GAACCTCCCTTTTGAAAATTACCTAAGAACACAGAACCTCGGTAACCAGGCAACCCATTGGTTAGAGGAAGGCCTGCAGGCTCACTTGGTAGAGACAGTAGAGAGGGCAGAATGTTCTCTTGCTGTCTTCGGACTACTCGAGGCTCAAGCCTCAAGAAAGACAACAGGAGGGACCATGATGTTGTCTGGAGGCACAGACTTCAGTCTTGCCTTCAGTGCCTATGGCCATTTACTCAAAGGGGAAATAATTTGACCAAAGCCAACCACAGAATGACTCACACAGACCTG
Seq A exon
GTAACTACTCTGTTTTCTCTTGGTGTTCAGAATAGAAATAATTCAGGGAAACTTGAAATGAGGAGAACCAATCAGATTTTGCACATTTGTGCCAGTTCGAGTCCTCCACTTTGATCTTTTTTCAG
Seq C2 exon
GATGAGAAGGTTTCTGCGCAAAAGAACCTGATGGAGACCAGGACTGAGTCATACATCAGGGCACAGACTGTGGTTGAGCAGATGAACACACTGGTGCCTTCTCTGGACAAAGGGTACCCATTGGTTGACTTAGCTTTTCTATCTACATATAAAAGTTCTGCCACACCCCTTCACATATTGGACCTGCTGTTTGTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000056897:ENSRNOT00000080161:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.153 A=NA C2=0.076
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0061815=RasGEF_N=PU(47.5=71.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
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:
TCGGACTACTCGAGGCTCAAG
R:
GCACCAGTGTGTTCATCTGCT
Band lengths:
257-382
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]