RnoINT0131138 @ rn6
Intron Retention
Gene
ENSRNOG00000054008 | Scamp5
Description
secretory carrier membrane protein 5 [Source:RGD Symbol;Acc:68356]
Coordinates
chr8:62226163-62230243:-
Coord C1 exon
chr8:62230115-62230243
Coord A exon
chr8:62226320-62230114
Coord C2 exon
chr8:62226163-62226319
Length
3795 bp
Sequences
Splice sites
5' ss Seq
TGTGTGAGT
5' ss Score
5.84
3' ss Seq
ATGTGCTCCTGGGTCTGCAGTGA
3' ss Score
5.24
Exon sequences
Seq C1 exon
AGAAAGTGAACAACTTCCCACCATTGCCCAAATTCATCCCCCTGAAGCCATGTTTCTACCAAGACTTCGAGGCAGACATCCCTCCTCAGCATCTCAGCTTAACCAAGCGCCTCTACTACCTCTGGATGT
Seq A exon
GTGAGTGCTGTGGGGGTGAGGGAGAAGCACTCGTCTCGGGGAGGGAGGGGTGCTGCACACCCTGCTTTCCAACTGTAGCATCTGCATGGCCTGGGAAATCCCCCCGCTGCTCCCCAGCAAGCTCACGTTCACTGGCCGCTTGCCCACTGGGCCTCAGTTTCCTTTGTGTAGGCCTCTCTTTTTTTCCTCTCCTTGCTGTCTCTTCGTCACAGAGTGGGGTTTCTTTTCTGCTGTTTCTTTTTCTCCTCTACCCCTTCCCACTGGAATACTTTTCCAGGGAACCAGTGGTGACTGCCACGATTCTGGATTTGGAGAAGAGCCTTCCCTTTAAAGCCTCGTGTTTCTTGATGCATTGCTCAGAGAAGAGCATTCGACGGGGAGTTAGGAGACATGGAATCTGGCTTGGATGCTCTACTTCCCAAACAGCAGGTTCTATATTGTAGAGAGGACAGCTCACAGAAGCTGTGGTTCCAGGTAGCTGTATGGTCTAGGGGTCTGATGCTCTGAGGGTTTAAGGATGAGAGTTTGGAGGGTGCCTGGTTATGCTCTGAGACAGGCTAGTGGAATGGTGTTGTCATGAGGTATATACACTTGACTTATACTGCTTAGTCATGTGAGGGAGGACAGGCTGTAGTGTGACTTTGCCTTGACTCAGACCTGTGCTCAGCTGTATCAAGAGGTTAGTAAAGAATGCTGTCTTGGGCTAGTGGGTATCTCAGTTTGTGAAGGAGGAATGAATGCTCTTGGCCCACAAGCCTGATAACCTGAGTTCAATACCTGGAACCCATGTAAAAGGTTGGATGTGGTGTTACATACCTGTAATCCCAATACAGGGCAAGATGGGAGGCAGAGACAGGAGACAAACACCTGGATGCTAGGAAGGGTGGTTGAGTTTGGAGTACAGAGTGCAGAAACAAGAGGGACTGTGCCTTAATAAGATAGATAAAAGAATGGCTCCTGAAAGTTGGCCTCGGACCTCCACACGTGCACTATGGCAAATACGGGACATACACACAGACCCAAACATAGACACACACAGACACACACAGACACACACAGACACAGACACAAACAGACACATACAGACACACACACAGACACACATACAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAAGAAGGAAGAGGAGGGGAAGAGGAAGAGGAGGAAGCAGCAGCAGCAAGCAAACGACTATCTCATCTCAATCCTTACAACAGGTCCTTCATGGGAAGTAGTCAGTAGCCAAGGGTCAGACTCATAGACTATTCTATGACCTGCCTTGGCCTATGGGCAGAGAAGGGTCCCCTGCCCTCTATAGCATGAGAAGAGGAGAAGTTGGACAGATATGGGTAGCCTATAGATATTAGAAGGAAAATGAAACACTTGATGGCTTCTGTTTTTCCCATTAAATAAGGAGGAGGGGACTGGAGAGATGGCTCCGCAGTTAAGAGTACGGTTTATTCTTCCAGAGGACCAGGGTTCAATTCCCACCACCAAGATGGAGGCTTACAACTGTCTGTAACTCCAGTTCTAGGCCCTCTTCTGGCCTCTGCAGGTACTGCATGCATATACAAATAAATATGCAAGCAGAATACCCATACACATAAATAATAAAAAATAAAGCTAACAGTTTTAAAAAAATATATGGAGGAAGACTGAGGTGGGGGTTTTGGGGAAGGTAGGTGGGGTTAGCGTCCTCGTCTTTGTAGCAGAAGGTGAGGATGCAAAACCCATCCTCCCAAGATCTCTGGGACATCTGAGGTTGGTTTCTATGAATTTCTAGTCCTTTCAGACTTCCCCAAGGGCAACACCTTTTTTCCTTAGGTGCATTGAGCTCAGGTAAAGATGTGTGTTATGGTCATTCTAGGTTAATCCACACCTTTAATTCCTGCACTTAGGAGGCAGAGGCACGTGGATCCCTGTGAGCTCAGTGCCAGCCATGTCTGCGGAGTAAGTTCTAGGTCAACCAGAGTCGTACAGTGAAAACCTATCTCAGAAGAAGAAAGAAAGGAAGGGAGTATAACAAAGGATTGTAGGCTCTGAGCTGGGCAAGGAGAAGAGTAAAGACAGAATACCTCATCGCTGGAGAAGTACTGGCTGAGTCAGGGGTGCCCATCCCAAAGACAGAGAGGAGAATTGCAATATAAATGCTAGAGCAAGTGAGCTAGAGATGGGCGAGCCTGGGAAGAGCGATGCTAGCCAATATGATAACAGATAGTGTCTTTTCTAGGCCAACTAGTTTCCAGGCCAACTCTGACAACTTGAGTTTGTTCCTTAGAGGCCCATGTAGTGGAAGGAGAGAGCTGACTCTGACTTCCACATGTGTGCACCATGGCAAACACACACACACACACACACACACACACACACACACACACACACACACACACACACACACGCAAATTGCTGTTTTTAAAGAACAAACAAAATCAGTAAGAACAACAAAGCTCTAGGAAACTTTGAAGCAATCCACAGGAATGGAAGAAACACCTGAAATGCACAAGAAGCATCCATATTTGTTGTGGGGGCCCTGAGGTGGGTGTAGCTGCAGAGGTGACACAGTCAGGCTGGGTCAGAGTTAGGAGAGCATTCTGCCTGGCCCTGGGCTCCTGGAACTCTGCCCGCATGAGAAGATCTGGTCTAGAAGCTGGATTTAAGAGCTATAAATATCTCCTTAAGTCCTTGCTAGGTGCCCGTCAGGTGCTTTGGTCCTGAAGTAAAATGTATCTGAGCCTTGAGATTCAGAAGCTGGAGCAGAGGTGTTTGACTGAGGCCAAGATTGAGCCCACCTTCCTTTGTTAACTTAGCAGGTTTTTGGAGATTCATTCAACATTCAAGGAAGAGTTCTCTGATGTCTAAAGATCTAAGTGTGTGTGAGTGCTAACATCCGTTTTCTATAAAGTGAAGTCTTTAGACTTCTGCTGGCTGTGACTGAGTGATAGTATGAGTTCTAGGATCTTTAGGTGAGGTGAGAGAGAATAGCAGTCTGGATCTCACCCCTGAGGAATTCTTAGTCAGGGTGATTGATTGGAATTCCACTTAGGGAACTGCAGAGCAACCCAGGTCTCCAGGTCAGAGGAAAGGATCATAGGTTAGACAAGGACTCAGTTCCCAGCCAGTGCTGTCTGCCCTACTGAAGTGCCAGGAAGGTGGCCTAGCAGTTTGAAGAGATGTTTCTGGGTCTTTTTCTCCTTCTATTTCCTGTCCTTGCTTTGTAAGAAAAGATAAGGTGGATCTCTTGCTTTAGGGTTGGTGACTGCTGTGGGTCTGGGAGGACCAAGGACTGACTTGTCTTGTGGAGAGAATCCTGGCCTCTTGCATGCTCAGCTCAATTCTAACGCTGCTCTCCTAACCCCCCTCCCCCGCCAACACACCAGCGACTTTTCTTACTAGGACAGGACCCTGCGGCTTTGAAATCCTTCCAGGGGCCTTGCTGGGCAGAAGCTCTGGGTTCTTGCTCTAGAGACTCTTGGTTGGTGGGATTTCTCAGGGAAGTATTGACCCAAGCTCCCAGCTTTCTTATAATCTGTACTGTGTGTGTGTGTGTGTGTGTGCGCGCGCGCGCGTGCGAGTGTGTGTGTTTGCATTTATGCATGTATGTCCCTGTGTATGTCCATATCTTGCTGCTTGTCTGTGTTCTTGCCATGTATTTGGTCGTGAGTCTATATGGAATCCCGGGTGTGTGTCTCCGTGTCTGGACACTCACATATCTCTGTTTGGACTTTGGTGTCTGTGTGTGTATCTGGTGTCTATCTCTGTGTGTGCATGTGCTCCTGGGTCTGCAG
Seq C2 exon
TGAACAGCGTCACGCTGGCCGTGAACCTGGTGGGCTGTCTCGCGTGGCTGATCGGAGGCGGGGGAGCCACCAACTTTGGCCTGGCCTTTCTCTGGCTCATCCTCTTCACACCTTGCTCCTACGTCTGCTGGTTTCGGCCCATTTACAAGGCCTTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000054008:ENSRNOT00000080012:4
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=PU(23.7=95.5)
A:
NA
C2:
PF041448=SCAMP=FE(29.4=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:
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]