RnoINT0131127 @ rn6
Intron Retention
Gene
ENSRNOG00000019136 | Scamp2
Description
secretory carrier membrane protein 2 [Source:RGD Symbol;Acc:68348]
Coordinates
chr8:62362036-62366619:+
Coord C1 exon
chr8:62362036-62362137
Coord A exon
chr8:62362138-62366498
Coord C2 exon
chr8:62366499-62366619
Length
4361 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
TCTGGTTTCTCCTTTTATAGTGG
3' ss Score
7.27
Exon sequences
Seq C1 exon
GTCTGACAACTCTTTCAGCTTCTTCGTGTTCTTTTTTGTATTTTTTTGTCAAATAGGAATCTACTTCATCCAGTTGATTGGCTTGCCTAACTTGGGGACCAG
Seq A exon
GTAAGACCTGAGCTGAGGCTCACCTTCCCTGCCATTCCTTGGCTCCTAGAGAGCCTGTTCGGACCATGGCAGAGAAAAGGTACACTGCCACCCTTGGGTTCTCTGTGTGATGAAACACTTCCTGCAACACACACATCCACTCAGCCCAGATAGGAAACCCAGGACAGACCAAAGCAGTAGTGCCATCAAAGTTCAGCTTGGTGAACCAGTGCTTTCTTTTGGGGTTACTTACAAGGATATGGGTGAGGGATAACTTATAGAGCAGAAATAACTCAAAGACTGCTGTGTCACCAAAGTCCACACCAGCATGGGTGACAGCTCACCAAGGTGGGTACTTGGAGCACACAGCACAGCCTGCAGGCAGCTCAGCAGGTTGGAGACTGTCCTTTCCAATGACGCTCTCCCAGGCAGCTGGTCTGGTGTCAGGAGTCTTCCTTGAAGGCCAGCTCGTCTGGGAGTGTTCTTTCAGCCTCCTTCATCGAGGCTTTTCTCTAAATCCCTTTCTCTAGCAGGAAGGGATTTAGTGAATCTGGTCAGTTTCAAGGACTTCCTGAAGCTATTTTGAATTGTTTACAGTAGGATAGAGTGTTTTAGTCTCCGTGGAAACTCTATGCAACACCTCTTTCCTGGTCATTTCTTCTTTTGGGGATCCTAGGGGTCAGACTGAGAACCTGTACATGCTAGGAAATACTCTGTCGCTGAGCCACAACCTGGTTTTCCATGATTTTACCGAAGTAGTTGTTTTTCTTGTTCTCTTCCTTCTACTGTGTGTAGATGAGAGTGTCTCACTCTGGCCTGGGACTTTCTATGTAGGCCAGAGTGACTTCTAATTTATAGTGATCCTCCTGCCTGCCTCCAGAGAACTGAGATCTCAGGCTTGAGCCACCTTGCCAGTTTGGGTTAGGTCTCTAGGGCGGTGTCTAGCTGTGTCTGTCTAGCAAGTTATTGCTTTTCTCTTGGAGTGTTCTCTGAGAGGCTGATGGATCCTTGGCCTTTGAAGGCCCTAAGTTATACCTTATTTCTCTCAAACTCACTATGTAGCCCAAAAATGACCTTGAACTTCTTGTCACCCTGCCTCTGAGCTGTACCTGTTGTTTTATGTAGGCTTGGAATGGAATCCAAGGCCTCATGCGTGATAGGCAAGTACTCGATCAATGGGCTACATGCTCAGCTCCCATCGTACTCTTTCTCTCAGGGCCTTGTGACTGCAGAAGTGTTGTCTTCCTCCCTGGAGAGGTGTCTTGCTATTCTGGAGCATGTAGCTAGTTTGAGTTTCCTGGCTACCCCTGTCCTCAGCTCAGAATTAATTTCCAAAAGAATGGCTGATGGCTGGTGTTTTCCTTTCTATGCCAGTGCACAGGGAACATTGCAAAAAGGTCGCACTGGCATGGGGCTTGAGAGCAGGGAGGCACTATTTTAGTCCCTTCCTTACAGCAAGTTAGCAAGTCCAGAGTATGAGGAGAGGACCTGCCATCCGCACTGGCACTCTGCGCACACTGCTGTCCGTCCTGCCACCCTCCTGCCTTATCCTGTGTTCTAATCCCGACCCTTTGAGTATATGGTCCAATTTCATCATTACCTTATGCTAGATGTTGTTAGGAAAGCTAGCTTGACCAAGTGTGGGTGGCCCATGTCTGTAATCCCAGCACTTGGGAGATGAGGCAAGAAGATTGGAAGTGTAGGGTCAGCCTGGGATATGTAGTAAGTTCTGGGCCAGCCTGGAGAACATAGTCTCAAAAAACAAATCAGCTGAGCAGGGTGAGGCATTCATTTAATCCCAGCACTCAGGAGGAAGAGGTAGGTAGATCTTTTAGTTTGAGGGTGGCCTGGTCTATATATAAAGATCTAGGCCAGCTAGGGTTACATAGTGAGACTGTGGCTCAAAACAAACAAATGGGGTGTGTGGGGCATGCTACAATTAATATTCGCACTCTGGACTGAGAGTCTGAGATGTGAGGTCTGGTCCTCACCCTGCCTTCGCTGCCTTGTACTCAGTGAGCTCTGCTGGCTCCTGCCTGTTCTTGCTCCCATACACCTTCTGTGGCTGTTTTCTTTCCTCTTTCTATGTGTATGTGTCTGCCATTGTGTGCATGCATGCTCATGTAGGGTCATGTGTGTACACTCTGTGGAAGCCAGAGGTGGTTCTTTATACACCATCCACCTTGTTTCTTGTTTTATTTTTAACTCTCTGTGTGTGTGTGTGTGTGTGTGTGTGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGGGAGAGGGAGAGGGAGAGGGAGAGGGAGAGGGAGAGGGAGGGAGAGAGAGAGGTGTGGGGGGGATCGGCCTCTCATTATCCTGGAGTGTGCTGAGAAGACTCACTAAAACCAGCAAACTTCAGAGATCTGCTTGTCTCTGCCTTCCCAGTGCAGGCTGGGATGAGAAGCATAGGCTTTTTAAAATGTGGCTCTGAATTCAAGTTCCCATGCTTATTTATGCTGAAGAACTGAGCTCTCGTACACTTTTTTTTTTTTTTTTTTAAAAACAAGGTTGCCCTTTAGCTGCTGATCTTCCTGCTTCTGCCCATGTGTGCATGCATGTTCATGTGTGGTCATGTGTGTACACTTCTGTGGAAGCCAGAGGTTGAGATTTGAGGTCTCAACCTCAAATTGCTAAGATCACAGGTATAAGCCACAGCACCCAGCTTTAAGACACAAAAGGTTTTAAAATTATATCTTTACTTAGTGTATTTGTACATGCAAACAGGGACCCCCATGTGAGAGCCAGCCCTCACCTTCCACCCTTTGGGTTCTGCAGATCGACTCCAGCCTGAGGCACAGTGGCGACTCCTTTATCTGTGGAGGCGGAGCGAACTTTCCTGCCACTACAGTGGTCTTTGCTGCTTGTGCTTTTGGTGTCACACTTCAGAGTCATGAAAGTTACTTCCTGTTTTCTCCCACCAGTTCATTTGTTTGTTTTTTGAGACAGAATCTGTCTATGGTCCTTGCTGTCCTGGTTATTATGTAGACCTGGCTGTCCTAGAACTTATATTCTCCTGCCTCTGCCTCTGAGCACTGGAACTAAAGGTGCATGCTACCATGCTTAGCCTTTCAAAGAGTTTTCTAGCTCTTACAGTGAAATCTTTGCCCAATTTTAAATTAATTTTCATATATGATTCAAGTAGGGATGTCCTGGTACCATTTGTAAAGAGACTATCAGTTCCCCTTTAGAGTGTTAACAATTTTTTTTTATTCTTTTTATCTATTGGGTTTGGGGGAACATGCACACCAAGACATGTATGTAAAGGTCCGAGGGTACGGTCTTTTCTTCCACCACGTGAGTCCTGAGTATCTACGCTCGGTTAAGTTCCTTTAACCACTGAATCATCTCACTGTTCCCTTGGTTTTAGGACCCCCAAAATAGATTGGGGGTCCTGGAGAGATGGCTTGGTAGTTAAGAGGACTGGCTGCTGTGCCAGTGGACCCAGGTTCAATTCCCAGTACACCATGCCAGCTCACAACTGTCTGTAGCTCCAGTTGCAGGGGATCTCACACCCTCACACAGACACAACAACAATTCACAGAAAAAACTGAAAAAGAATTTCTTTTAGATTTATTTATGTATATATATGAGTACATTGTCGCTGTCTTCAGACACACCAGAAGAGGGCATCAGATCCCATTACAGATGATTGTGAGCCACCATGTGGTTGCTGGGAATTGAACTCAGGACCTCTGGAAGAGCAGTCGATGCTCTTAACCTCTGAGCCATCTCTCCAATTCCTGAAAAATAATTTAAAAAATATGTACATCTGGACTCTGAAGCAAATGGCATTGCTCTTCCTGCTATTCCCACCATGCTTCGATTACTGTAACTTTGTTTTAAGTTTTGACATCAGGTAGCACAAGAATAATCCCTTTATAGCTAAGGACACTGAGGCTCTGGGGGTGACATAACCACTAAAGGCAGAGATTCTGATGGGGGAGGCTGAGGTTACAGGGTAGAGGCAACAGTCTGTCCAGTGCTCCTCTCCCCAGAGTCCTCTGTAAAAGCCAAGTCTTCCCTGTTCCCCCTTAGTCAGCAACAAACCCTGAGCCTTGGGCTGCTTCTGGCAAGGGAGTTGCCACATCTCCTTTCTGGACCTCACTGGGCCAGAAGATTTCCATGTGACCCCCACCTCTGAGACCTCAGGAGAGCTCATGTTGGACTAGTGTGGGCCTGTCAGCACTCACAGCCTGGTCTCTGAGGAATGTTATCAAAGCAGAAGGCTCCCTGTGCTGCTGGGAAATGTTCACGTGGTGGTCAGAACACAGCCATCTGGGAGAAGTGCTCCTCTTGGGGACTTCTGAGTTTCAATCTTACCTCACCTCTGGTTTCTCCTTTTATAG
Seq C2 exon
TGGTTGGCTCGCAGCCCTCTCTACAGTGAATAAGGGGCCCTTAGCTGTGACCATCATCATGATGGTAGTGGCTGGCTTCTTTACCCTCTGTGCTGGGCTCTCACTCTTCCTCCTGCAGCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019136:ENSRNOT00000066923:7
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(19.0=100)
A:
NA
C2:
PF041448=SCAMP=FE(22.3=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]