RnoINT0131117 @ rn6
Intron Retention
Gene
ENSRNOG00000061582 | Scamp1
Description
secretory carrier membrane protein 1 [Source:RGD Symbol;Acc:3625]
Coordinates
chr2:23874828-23877288:-
Coord C1 exon
chr2:23877129-23877288
Coord A exon
chr2:23874843-23877128
Coord C2 exon
chr2:23874828-23874842
Length
2286 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
AAGCTGCTTCCTGCCTCCAGTTC
3' ss Score
6.71
Exon sequences
Seq C1 exon
TCCATGCGGTAACCCTGTTCCTGAACATCTTCGGATGCCTGGCTTGGTTTTGTGTTGATTCCTCAAGAGCAGTTGACTTTGGACTCAGCATCCTGTGGTTCTTGCTCTTTACCCCCTGTTCATTTGTCTGTTGGTACAGGCCACTCTATGGGGCCTTCAG
Seq A exon
GTAAGCCACGCCTGTGGGTCAGTGTGTGCTGAGGACCTGTCAGTTAACATGTGTGCTGAGGACCTGTCAGTTAACACGTGTGTGCTGAGGACCTGCCAGTTAACGTGTGTGCTGAGGACCTGTCAGTTAACATGTGTGTGCTGAGGACCTGCCAGTTAACATGTGTGCTGAGGACCTGCCAGTTAACGTGTGTGCTGAGGACCTGCCAGTTAACATGTGTGCTGAGGACCTGCCAGTTAACATGTGTGCTGAGGACCTGCCAGTTAACATGTGTACTGAGGACCTGTCAGTTAACATGTGTGCTGAGGACCTGTCAGTTAACATGTGTGCTGAGGACCTGCCAGTTAACATGTGTGCTGAGGACCTGTCAGTTAACATGTGTGCTGAGGACCTGCCAGTTAACATGTGTGCGGTAGGAACTGTGAAGTGTGTGGGGGATGGGTAGCTCAGCCCTGGGTCTCAGCACGAGGAGGCTGAGGGAGGAGGATGGCTATAGGCCAGCCTGGGCTATAGTTTATATCAGGCTGGGGCTACAGAGCAAGACCCTGCCACAAACAAACACCCCATAAAATGAATAATATATACTGTACCTCAAAAAGAAAGTTGGTGCATTCTCATTAATTTTTTTTTTTTTATTATCATTATCAGGGCCAGTAAGATGGCTCAATGGATAGAGGTGCTTGCCGGCAAACATGGTGACCTGAGTTCAATACCCAGGTCCCACATGGTAGATGGAGGGAACTGACTCCTGCAGGTTGTCCTCTGACTTCTATGTGTGGACCATGGCAAGCATGCCTCGGTCCCCAGTAAATGAGTATAAGCATAATACGAAGTTAACATTTTTATTATAACAAACTTCCTGAAAAGCCGGACGCAGCTTACTGCATATCCACTGGATTGTAAAATTCATAAGCGTTGTTGCTCTTAAAAATCAAACATAAAAATTAATGAAAGAAAATCAGTGCTCTTAGATTTTAACACGTAACACTGTATGACATGCATTGTACATGACTTTAGGAAACACTGCTGTTTACTCCTGTGCCCCTCACATGTCTAAATGATGAGTTACACCTGGTGGGTACAGCCTGCCTCTCCCGATCAGTCCAGGTCGGGAGAGCGGCACGAGGAAGCACTTCACTCACTCAGGAGCATGGCCGACCCTTTCCGTGCACGCTCACCTCTGGTTTTCCAAAGTCAGTGCCGTTTAAAAAGCTGTCAAGGCTATAACATGAAGAATGCCATTTTACATCAGATCAGTCACTAGTTAAATATACTGAGCGATGCATTTTCTAAATGAACGTTCTGTGGGATGCTAATCTTGTGTTGGTTTTAGAATAGCCAGTTAGCACAGTTAGGCAAAGTCCCCCGACTCCTCATCTCTTAGACTCCAGGTGCCCGGTGTGCCTTGTGATGTGACCATGAGGCCATTCTTTCCTGGGGAGCACCTGTGATTACAGCTTTGAGAGAACACTGGAACTCAGTCGGATGGTTCAGACCTTCATCACGGCCACTTCTCTTGAGCCCAGGGTTCTGGATTATCCAGTGCAATGTAGTTTCTCTCATTTCCTCCAGACGGGTTCTCCTTAACCATTCTGCCTGGCTTCTTTCTGCCTTCTCCCTGTTACCTTAGTAACTGGCTGCAGTTTCTGGAATAGTGAGCGTGAAGGTGGGGTGGCGGCCATGTCTTGTTCAGGTATTCGGAGAGAAAGCATCAACTGTGATGTAAGTCACAGACTTCATTGTTGATACATCTGTCGTCTTGAGGATGCCCTGCTCTATCTTTAGCTTGATGGGACTGTCATCATGAGTGGCACTGGAGCTTTCTAGATGTTGTTCTGTGTCTGTGTCATGGTCATGTGGTTGTTTCTTTTACCTAAGCTAGTGAGTCACGCTGCCTTTTACAAGTGAAGCTTATCGCCATTCTCTCACCTCCCCACCCATGGCCCTGTAGTCTCTACAGGAGCTGTAGCCAGGGCTCATCTCACTTGAAATGCCTGCCCAGGTATAGACTTCAGCCTGCAGATTCTGAGAAAGTTAATTGTATCAATCTTGGATTACTTCTTTCTGTTGGATTACTTTTCTTTCTTTTAAATAAAACTCATGCTAATATAATAGAAACATCTATTTTTCTCTCCCATTTTTTCTATCCCTTTGCTTTTCCATCTATAAAGCAGGAGCCTCTTTGGACTTATTTTCAAACCACCAGGACGACGTTGGTTTTGAATGGCAGCACTGTGAGCTGTTTTCAGGTCCCTGCGTTCTGTGCAAGCTGCTTCCTGCCTCCAG
Seq C2 exon
TTCAGATGTAAGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000061582:ENSRNOT00000084044:5
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(55.2=100),PF041448=SCAMP=PU(3.9=3.7)
A:
NA
C2:
PF041448=SCAMP=FE(2.8=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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]