RnoINT0131923 @ rn6
Intron Retention
Gene
ENSRNOG00000013123 | Scube2
Description
signal peptide, CUB domain and EGF like domain containing 2 [Source:RGD Symbol;Acc:1563998]
Coordinates
chr1:174430092-174434181:-
Coord C1 exon
chr1:174434029-174434181
Coord A exon
chr1:174430172-174434028
Coord C2 exon
chr1:174430092-174430171
Length
3857 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGC
5' ss Score
9.26
3' ss Seq
TATGTCCTTTATTCCAACAGAAG
3' ss Score
8.62
Exon sequences
Seq C1 exon
CTTCATCAAATTCTGTGACCACATATGAAACCTGCCAGACCTATGAACGCCCCATCGCCTTCACCTCCAGATCAAAGAAGCTGTGGATTCAGTTCAAGTCCAATGAAGGGAACAGTGCCCGAGGATTCCAGGTTCCCTATGTGACATACGATG
Seq A exon
GTAAGCAAGAGCTGTGACGCCCGGGCTGTGCCACTGCAGGGCTGGTATGGCTGTGCTCTGAACCAGGAACCGGCTACTGAGCCAGCTGGCAGATGCTGGCAAGCACACCCACTCGGCCAGCCAGGCGGGGTAAGGCAAAAGGATATAGCTGACTCATTGGGGCCACCTTTTAAACAGACATTTGGGGACACTTATTATGGGGATGGAAAAGAATGGTTTAGAAAATACAGGGAAAGCAAGCAGTCAGGTGTGAGAACATGGTCGTTGGGGTCAGGCAACTGGCTGTCTCTTCCAGGACTTCAGTCGCTGACTTACTAGATCTAAGTCTTATTTTCTTGACTTCCAGTGGTGAGTGAACCTAGGGCTTCTAACTCTGAGCTACACCTCTAGTCAGGCCTTATTTTCTTAGTGAGTGATGGAGAAAATCATTTGAATGAACATTAAGAGTTTAACACAGGACAGTGACTGGCAGATAGGAGTTGCTCAAAAACATTTAAACTGGGGGTTGGGGATTTAGCTCAGTGGTAGAGCGCTTGCCTAGCAAGCGCAAGGCCCTGGGTTCGGTCCCCAGCTCCGGAAAAAAAGAAAAAAGAAAAAAAAAATTCAAACTGGCCAAGGTTGTGACTTTTATTACTTTTATTCCTGAGATGGGGTAGAGGCTTAACTTCAGGTCTTCGCCCTGCTTTCGACTCTGATCTTGGGCAAGTCAGATGATGTTTCTGGATCCTTTGGATCCCTGGGGACCTACTGAGATTCTGAGACTTGGTCTACAAATATTTATTGTGACTAGAACACAAAAGTGTGTGTTTTGTCATAGATGCTTGTATGTATAGGGTACATACAAGGCAGTGGGAGCACAGAGAGAGAGAGAGAGAAGGCAGCAAATACTCTGAACAGGCTTGGAAGGAACAGATCAGTTTCAAGAGGTTTGAGTCTGGAAAGAACATGGAGACTGAAGTGGGACATAAATAGAAAGAAGACCGTTTGGGGAGAGCCTGAATGATAATACTCCTGCCACAGTTGTTTGGCTGGTGGGGAGCACGGGGAGGAGAATAAATGAGACCGTAGCTAGGCAGTGAGGAACCTTCAACCAAGCTCAGGAGAATAGAATTAATTTTATAGGGAGCCTTTAAAGAATTTTAGGCCAAGAGATGACATCCTTGGCTTTCCTAAACTCACTTTACATAGTTTATTTCTAACAAGTGATACAAGACTCTCGGCCTGCCCTGGATTTTTCTCAAATGATGTGTAATGCCCAGGATAAGGGTTCTTGAAATCTGACTTCTGGGACTCTGCTGAGGGAGACATTGAGTCTAGTTTCTTCCTGGAAGCAAGTGTCCAGTAAGCTCTCCTGTCTGGAGTCGTGAAGGAAAAAAATGGACTCTGAGGCTTGGGCAAATGTTATCACATCATTGAGACATTTTCATATGTCACACTTTGGAATGCTGTTGTCATTCTGCCTTGGTGACATATTAAATGTTCCTTTTTTATTGAAAAAAAAATGAAAACAAGGGCTGGAGGTGCAGCCCGTTTGGTAGAATGTTGGTGTAACATGCGTGAAGCCAATGCCCTACTCCCAGCGTTGTATAAGCCGGGGAAGCTGGCACTTGCAATCCTATCAGGAAGAGCACAAGCTGGTGCGGGTGGGTGGGGTGGGGGTTGCAGCTGAGTCTCACGCTGGAAAAGTGCAAGAGTCCTGTGACAGTCATGGGGCATTCCTGAGCACCAGGTATGCATCAAGGTGCCTTTTATGAGCCACATTCCTCATGGTCACCCCATGAAGCAGACCGGGTCACTTTCTGATGTTACAGATGAGGCCACTCAGCCTTAGAGATTTAAATAACTGAGCTGAGGGCATGACATAGCAAAGCTGCAGAACTGGGGTGACCCAAGTGTAGAGACTTCAGAGCGTGAGTTCTTACCTATAAACGGCTCTGTTTTGAAACGCAGAAGGAAGGCAGGAGGCACAGGCGCTCTTAGAAACAGGGAGTGAATTTTAAAAGACAGCATCCTGGAAGCATATGGTCTAATGGCAAAGCACAGTACAGCTTTCTGTGACAAAAGTTTGCACAGCAGCCTCCTTTCCTAAGAGTAGATTCACCTGACAGAAAGAAGCCAGACACTCAGCAAAGGTGCAAACCTCAAACTAACATAAGCAGGGTACGGTGGCATACATTTGTAACCCAGCGCTTAGGGGTGGAGGAGGTAGGGTGATCAGGCATTCAAGGCCAGCTTTGGTTGCATAGCAACTTCAAGTCCAGCCTGGGCTACATTAAACCCCATTTTAAAAAAGAAAAAAAGAGAGAAAAATAAAAAAGAAAGAAAGAAAGAAAACTTTAACTCCACACTTTGTTTATTTGGGCTTTGTTGTTGTCGATGGTGGTGTTTGTTTTAGGACAAGGTCCTGTAGCTCACAAAGTTACCATGTGGCCCACGCTGGCCTTGAATGTATACCTTATATATTCATTAAAATCAGAGAATGAAGACAAAAGTGCCATGTCAGTAGTCGCAATGATACAGTGTGTGTATGAAATATTCATTGTGCAGTGATGTTCCTTCACCGGCTCTGGACTGAAGAAACTTCTTGGGAACACTTCCAGCTGCCTCCTCAAGTGCTCTCAGAACTCACGTGGCCCCTCAGCACACGGGATGCATTTAGAAAGGCGGTTTCTGATGTGTCTGGGCTTTGGAGAGGGCTGTGCTCTGCATATGCTTGCTTGAGTTATGACTATGGGAAGTAGGCTAGACTTCAAAGTGGGGTGAGATTACATTTGGAAAAGGAATACTGCATGCACTGCACATAATGTGTATGCCAGGAGCACAGAAATGGTCAACGTGAAAAAGCACATTCTTTTTCTCAGACAGCAGAGTTCTCTATCCCTAACCCTATTCCAGCTAAAGAGAGAAGAATCTTTCTTGGTGGTAAGCTTCGTCACCTTAGACACTTTGAGGACAGAGAGATAGTGGAGGCATGGAAGGCATTGGTAGAGAGGGAAAGAAAAACCTGGATGAGCCCCCAGGGGAGGGAGCGAAGGTAAGAGCAGATCACCAAGCAGGAGCCCCCAAGCCCCTACTACAGGAAAAGGCGAAGGACAGGAGGAAAGCAAGAAGTCCTCAGGGAGCAGTCAGTGAGATAGTGGGGAACCAAAGTGTAGAGTGTGCTGGAAGATCAGAGAGGAACTGGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGGTGGAGGAGGAAGAGGGTGACAAGCTAGGTCAAATGCTACTAATGCATAAAGGGAATCGAGGACCAGCATTTGACACCAGGACACAGGCCATGAAGGGCATTGCTGATCTCAACTTGCAGTTTTGGAGAAATGCTTGGGACAAAACCGACAGCAGTTGGATTAGGAGAAGAAAAGTCTAGCTGGAGACAGTGAGTGTTGAAGTTTCTCTGGAAGGCGTTTGCTACAAAAGGCAAGAGAGGCACGAAATGGAACCTGGAAAGAAATATGGAAGTTAAACAAGGCATTCTTAAGAGCCGCTTGTTTTCATGCTGATGGGAACCAGTAGAAAGATTTCTGTGTAGGAAAAAAATACAGAATTACTGGCATAAGTGTCCTTGATTTGGCGAGGGAAGATGCGTCTGGTGTAGGAGGTAGAGGATGGGTCTGACTAGAAGCACAGAAGGTTCCTCTGAGGAGGCGGGGTGGGCAGGGAGATGCCAGCTGGGTGGAGGTGTTGACTGCGTCAGAATGGAAAGTTCTCTCAGAGCAGCCACCCAAGGGAGACTTCTCAGAGCTTACAAGAGATAGAAGCTTGAGTTTGGAATAAACAGTGAGAAGTAAAGTATGTCCTTTATTCCAACAG
Seq C2 exon
AAGACTACCAGGAGCTCATTGAAGACATAGTCCGAGATGGCAGGCTCTATGCGTCTGAGAACCACCAGGAAATACTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013123:ENSRNOT00000052377:20
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:
PF0043115=CUB=PD(41.8=88.5)
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]