RnoINT0131139 @ rn6
Intron Retention
Gene
ENSRNOG00000054008 | Scamp5
Description
secretory carrier membrane protein 5 [Source:RGD Symbol;Acc:68356]
Coordinates
chr8:62225127-62226319:-
Coord C1 exon
chr8:62226163-62226319
Coord A exon
chr8:62225229-62226162
Coord C2 exon
chr8:62225127-62225228
Length
934 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGT
5' ss Score
10.08
3' ss Seq
GACCTTCTCCTCTGCCACAGGAC
3' ss Score
9.97
Exon sequences
Seq C1 exon
TGAACAGCGTCACGCTGGCCGTGAACCTGGTGGGCTGTCTCGCGTGGCTGATCGGAGGCGGGGGAGCCACCAACTTTGGCCTGGCCTTTCTCTGGCTCATCCTCTTCACACCTTGCTCCTACGTCTGCTGGTTTCGGCCCATTTACAAGGCCTTCAA
Seq A exon
GTAAGTGGTTGGTGCCGACCCCAGCTCCTACCCCTGTCTCCCCCTGACTGCTATTCCACACTCTATCTGCTATTTCCCTGTTCACCTTTGACTGGGACTGTCAGGTGGAGCTTGGGATTCCTGGGAGTTCCTGGTCGGGTTGAGAGGGTTGGGAGTGGGACCTTTTTAGTTCTTTTTTTTTTTTTTTCAGTCTATCCTTCTTGTTAAGATTTACCTCTGGGCTGTCTTGGTGGAGCTGTCCATCTTTGTACTAGTGGGGAATGACTGAGTCGGTACCAAGAAAACCCTTTATTCATGAGTTAGTAGAAGCCATCTAAGACCCACTGATGCTACTCCATGCCAATGCTGTCATCCAACTCCGTGCCACAGGGACTACCTGTCTCTGTATTAATGGGGTGCCAGTGAGTGCCCATCCAGTGCCAACTGGGATTTTCGATTTTTGTGCCATTAGGGCTGCATATAGCAACGAGGCTGTCCTGGTGCCAGCAGAATATACATTTCAGTGCCATGGAGCCTTTAATCTCTTTGTCAACAGGACTAACCATTTATGTGCCAATTAGCTACCGTTTGTGGTGTCGGTAAGGTCTCTTTTCTGTGCCACCGAGACTTTCTGTTTCAGAACCGCCCGCCCCTGCTCCAGTTCCTCGACAATGGAGCTGATTGTTTTTCCCACAGTGGCGCCATCTCTCTATGCCAGTCGGGTCACTGATACATGTGCCATGGACGGTCCTTTCCTGAGGACATCCCTTTCTTGCACACAGGCCTAACTCATGGAAACCGTTAAAGATCTGTAGATGAAGGCCATCCTTCTTACGCTCCCATGTAAAGCACTTGGGTTGTTTGCTTGTCCTTATGCCTAGAAGGGCTTTGGGCTCTTGAGTGCAGAGAAGCCCAGTGCCTCTGCCCAGGTGACAGACCTTCTCCTCTGCCACAG
Seq C2 exon
GACAGACAGCTCCTTCAGCTTCATGGCATTCTTCTTCACCTTCATGGCTCAGCTGGTCATCAGCATCATCCAGGCTGTCGGGATTCCGGGCTGGGGTGTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000054008:ENSRNOT00000080012:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF041448=SCAMP=FE(29.4=100)
A:
NA
C2:
PF041448=SCAMP=FE(19.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGAACCTGGTGGGCTGTCTC
R:
AGACACCCCAGCCCGGAA
Band lengths:
238-1172
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]