RnoINT0131916 @ rn6
Intron Retention
Gene
ENSRNOG00000013123 | Scube2
Description
signal peptide, CUB domain and EGF like domain containing 2 [Source:RGD Symbol;Acc:1563998]
Coordinates
chr1:174455118-174459333:-
Coord C1 exon
chr1:174459229-174459333
Coord A exon
chr1:174455274-174459228
Coord C2 exon
chr1:174455118-174455273
Length
3955 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGG
5' ss Score
9.99
3' ss Seq
CATTTTGTTTCTTCATACAGAGA
3' ss Score
7.87
Exon sequences
Seq C1 exon
ATGTCGTCACCGTCAGGACAAGTGTAACCTTTAAGCTAAACGAAGGCAAGTGTAGTTTGCAAAAGGCCAAGCTGTCTCCCGAGGGCCTGCGACCAGCATTACCAG
Seq A exon
GTATGGAATCATGGCTGGTACAAGGAACTTGCCTGCACGCTGGGTAAGGGACCTGTGACCGGCTGAACGGAGACTGCTACCCAGCTGATGCACACACATGTCAGATGGCGCCGAGTTGTTCAGAATCTGCAGGGACTTTCTTCTGGAGGGGAGCAGAGCTTGCCCCAACCTTGTATATTTCTGGGGTTATACTATAGGAGGTCCTTCGTGAGGTCATCGTCAAAGCTCTGGGGGAGAACCTGGAAATCATGTGAGTCAATGGGGCTTGAAATGAATCAGCCACTGATGATTGTGTTGGGTTGAAGTTTTTAATCTTAGAATAGGGTTGAAGCATACACTATGAAAAAAGGGGTTTGACTCAGAAATGATAGCATTGGAGAACAAAGATGGGATGTCCAGTGTTCTTGCTGCTATGGTGATTGGGAACTGTGGTCCCAGTGGCTGTGGCAGAACAAATGCTATCTAGGAATAACTATGCTTAGCCAAAACAAGCATATCTAGTGTGCCCCTTTCTTCCCTAGCTTTCCTTTCCATCCAAACCTCAGAGAACACTTCTGGAGCTTCAGAGAATTTGAGACATACGTAGATGAGGCGTTTTCCCCCCAGACTACCCTCAAATTAACCTAAAGTTCATGCTAGCTACTTTGACAGCTCCCCGGGGACTAAGCAAGATGCATTTCAGTGCATAGAACACACACACCTATTAATTATATGCATCCAAAGAATTCGAGTGAGATAGGAAGATGGCTTCTTGTATGGCTGAGATAGTAGCTGGGTGACGGTAGTGATGCACCACTAGCCCTCGCCATTAGCCCCCGCACTTGGGAGGCAGAGAAAGGCAGATGCAGGCGGATCTCTGAGTTCGAAGCCAGCCTGATGTAAAGAGCAAGTTCTAGGTCAATCAGGGCTACACAGACAAACTCTGTCTCCAAAAACAAAGACAAACAAAAAAGAGATGGCAAATTCTATACATCTAATCAAAATTGTATATTGAAAACCCCTAACATTGAAGGCGGAAGCTCCAGAAAGTTGACTGTATCATCAGTAGTCATCGCATCTGGGTAGGAGAATGCTGGGTGATTTTGACTTTTTTTTTTAATTCTGTATTTTTCATATTCTCTTTCCATATTCACACTTTTCTGTAACTTTTACTAGACATGTTCTTTTAAAATTTCATACATGGATGTAGTGCATTCTGATTACCGACACCCGTGCACTCTCTTACCTCCCTCCCATCTTTATCACCTTCCCTTTCCTCCAAGTCCATTTTCCACATCTGCGTCTTTCTGTTTCTCTCTGTGACTGACTGAGTTTAACCAGAGCCATTTGTATGCCCATGGGTTTGGAGCTAATCACTGGAAGCTGTTGGGCTCATCAGTGGGTACACAGCTGAAGAGAATGGCTGTCGTCCCCCCCCCAGAACCATCAGTGTACAGTTAGTAGGGAGGGATAGAGCCCCATGACCCTCTCTGACCCATGATTGACAGTTGGCAGCCCCAGTGCTGGTAGCTGCAGCTGTTGTGCAACCACGATGGCACTGGCTGTGTGGTGGCTGGAAGACAGTGTTTCACAGGCCCTCTCTGTCTTCCTTCTCTCAGATTCATTATACCCCCTCTTTCAAGATGTCCCCTGGGCCTTCACCAGTGACAGACATGTGCTGTTTAGGGCTGAGTCAATTTTTTGTACTTTTAAATTAGGAAAGTACTTCTTATTTTATTTTATGTGTATGGGTGTTTTGACTTCATGTGTATCTGTGTACCACATATGTGCCTCATGCCCAAGGGGGGCAGAAGAAAAAGTGTCTGATCTCTTGGAACTGGAGTTACAAACAGTTCTGAGCCATCCTGTGGGTGTTGGGAATCAAACCTAGGTTTCCCCTAAAAGAGTAACCTGCAGAGCCCAGGGGTGTCAGCTCTCTCAGGAGCCACCAGTGTGGGTGCTGACGATCAAACTCTGGGCCTCTGAAGGAACGGTATGGGCTCTTAACCACTGAGTGGCCTCCCCAGCACAAGGAAGTATTACTTAGAAATAGATTTGGGGGTTTGGGGATCTAGCTCAGTGGTAGAGCGTTTACCTAGGAAGCGGAAGGCCCTGGGTTCGGTCCCCAGCTCTGAAAAAAAGAAAAAGAAAAAAAAAAAAAGAAATAGATTTGGTCTAGAGTTTACTTACTAGATTGGACCAGCATTGAAATCAGATATTAACAGCAGGGGGAGCTGAGAGGAGGGTGTGTAAGAACTCTGTACTTTTCTGTAAATCTAAGCTTGCCTTAAAATACAAAGTTTTCAAGCTAAATACAGTGGGTGATTGGTGTGAGTTCAAGGTCAGTCGTGAGTACATAGTGAGTTCCAGGCCAGTCTGGAGCACGGAGGGAACTTTGTACAAAGACAAAATGAATAGATAAAAGTAGTTTTTAAGGCAGCATGGTGCCTCGGTTGGTAAAGGCAGTTGCTGCCAAGCCTGACAGCCTGAGTTTGATCCTCAAGCCCCGTGCACATGGTAGAGGGAGAAAACTGACTCCTGCAAGCTGTTCTCTGTCTTCCACATGCACTCTCCCCACACGGCGTGTGTGAGCGTGGCACGTGTGAGCATGGCACGTGTGTGCCCCCCACACAAACATACACTCAACATATAAACTATGTAAAAATAGCTTTAATGTAGGGATTGGAAAGAAAGGAAAATAAGTTCAACGTTAACGTCTACTTAAGCCCAGAGTTAGCTCTTTGAGAATTATATAATAGGACTGAAAAGATTAAGTGTGTCGACTGCTTTTCTAAAGGACTCAGCTTTGGTTCCCAGCACCCGTGCTGGGCAGCTCTCCGCGGCCTGTACCTCCAGCTCCAGGGCATCTGATGCCATTTTTTGGCCTCCTTAAGACCTGCACGTACGTGGCATATACACATATATTCCATAGACATACGTACAAAAGTAAAAATACGCTTTAAAACTATAAAAATATATGTTTGGGGGAAATACAGGTAGAAAATGAATCTGTCTCTTCCTCTGGCTTTGTAATTAAAGACTAGGGCACAGATCACCTTTAGTTCAATAAAGTATGTTTTAAAAAGACATGGAATTAGCTTGGTGGTGGCAATGCTTTACTCCCAGCACTCAGGAGGCAGAGGCAGAGGCAGACAGATCTCTATACATTCGAGGCCAGCCTGGTGTACAGAGCGAGTTCCGGGTCAGCCAGAGCTGTACAGAGAAACCCTGTCTCGAAAAACAGAAAAACCAAACGAAACAAACAAAAACCAAACCAACCAAACAAACCCCCCAAGACATGCAAATAGGTTTTGTGGAAACGTCCTGCTTTGTAGTTTGGTTCGGTAGTTTTTCCTCCATTGAGAGTCAACAGATTCAGCAGAAGTGCTGGGCCTCTGGGCTACCACGACAGTCAAGAGTAGGGACGGGCAAAGGCTGACTTAGAGCAAGCATTCAGCGCTGCCCTAGATGGTTTCGGTTACCGTGTGGTTGGTTCTGTACAATCGTTGTGCCATGGGGTGTTTGTGGTTATAACATGAGACACCATTGGTGTCTGTCCTCGCTCCCCGGGGATGGAGCTGCACCAAGGTCAGCTGAATGTAAGCAGCAGTTGCTTTCCTCTCTTTCCATTTGAGACTTCAGCATCTGCTCGGGCTATCCCAGTGCGGCTGTGAGAAAAACCACCAGGACGATGCCCCCACCTTAGCCATCTGTCTAGTTCTCTTTCTCTGCTGTGGCCGGCCAGTGGGAGACATTCAGCCTTTACGGGTGAAAAGAATGTTCAAGAGCTCGGCTGTAAAGTTACACAGGAATGACAATGTCCCAGCTTCAGTGAGGGACTGGCGATGGCTCAGCATGTGGAGTGAATCACGCACTCCCTAGAGGGTTGTAATGAAATGTTTACTGAGAGCTAGCAAATGCTCAGCTCAATCCTCTGCCAGGACTTGGCTTCCGATCATTTTGTTTCTTCATACAG
Seq C2 exon
AGAGGCACAGCTCAGTAAAAGAGAGCTTCCACTACGCAAACCTTACATGCAGCCCTGGCAAGCAAGTCCTGGGAGCCCTTGGCCGACCGAACGCCCCTAAGGAAATGTTTATCACGGTTGAGTTTGAACGGGAAACTTACCAAAAGGAGGTGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013123:ENSRNOT00000052377:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.213 A=NA C2=0.057
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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]