RnoINT0131125 @ rn6
Intron Retention
Gene
ENSRNOG00000019136 | Scamp2
Description
secretory carrier membrane protein 2 [Source:RGD Symbol;Acc:68348]
Coordinates
chr8:62359972-62360837:+
Coord C1 exon
chr8:62359972-62360100
Coord A exon
chr8:62360101-62360677
Coord C2 exon
chr8:62360678-62360837
Length
577 bp
Sequences
Splice sites
5' ss Seq
TGTGTGAGT
5' ss Score
5.84
3' ss Seq
CTTTCCTTGCCCCTTCCTAGTGC
3' ss Score
8.7
Exon sequences
Seq C1 exon
TAAGAGAAAACAACTGGCCGCCACTCCCCTCATGGTGCCCTGTGAAACCCTGCTTCTATCAGGACTTCTCCACGGAGATCCCTGCCGACTACCAGCGGATATGCAAGATGCTTTACTATCTGTGGATGT
Seq A exon
GTGAGTTCCCGAGTGCACTGAGATCCCCTGGTTTGCTTCCGGGCTCTGCTCACTAGGGTCAAGACCTCTCACAGACTCCATCCTTCCCAGGGTTTGGCTAGCATGGGGAGGTTCTTTATGGCCAATCTAGGAACCTGCTCAAAAGGGCCAGCTCGACTGTTTTGAAAAGGAAGAGGGTCCAGCCAGAGACTTCTGTGTTCCTGTAGAGCTCACTGTCCTGAAAGGCTCAGCCTAGCTCCCCCCAGGCCTCTCGGTTCCTATTGGTGAGAGAAGACTGCAGCTCCATTGTGGGCCATTGAAAGTTATTTCATTTCCCAGGGATCAGCTCTAGGTCTGTACCTTACCATGCCTATTCCTGAAACCTCCTCACACCTGTCTCCTTGTCACCTCCTAAGAAAGCTCGGTCCTTAGTGTGAGGCCCCAGAGAACCAGGATCTGGAAGCTAACCCTCCCTTGGGATAGACTGAAGTCCCTATTCTTTTTGCAGCCTCTTTCACAACGTGGCCTTTCTTAGGGAGTAGCTTACTCTGTGGGCAGCCAATCCTCAAGCCATTTTTCTTTCCTTGCCCCTTCCTAG
Seq C2 exon
TGCATTCAGTGACTCTGTTTCTAAACCTGCTTGCATGCCTGGCCTGGTTCACAAGTGACGCAGCTAATGGAACAGCCTTTGGCCTCTCCATCCTTTGGTTTCTGATTTTCACGCCCTGTGCCTTCCTTTGTTGGTACCGACCCATCTACAAGGCTTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019136:ENSRNOT00000066923:5
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:
PF120723=DUF3552=PD(10.9=11.4),PF041448=SCAMP=PU(42.4=95.5)
A:
NA
C2:
PF041448=SCAMP=FE(29.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGAGAAAACAACTGGCCGCC
R:
GAAAGCCTTGTAGATGGGTCGG
Band lengths:
286-863
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]