RnoINT0131889 @ rn6
Intron Retention
Gene
ENSRNOG00000010617 | Scube1
Description
signal peptide, CUB domain and EGF like domain containing 1 [Source:RGD Symbol;Acc:1309015]
Coordinates
chr7:124617406-124620703:-
Coord C1 exon
chr7:124620533-124620703
Coord A exon
chr7:124617538-124620532
Coord C2 exon
chr7:124617406-124617537
Length
2995 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
GACTTTCCCCTCCTCCGCAGGAG
3' ss Score
10.62
Exon sequences
Seq C1 exon
GGAGCTTGCTGCAGACAGGAGCGCTCGCAGAGCGGCCGCTCTGAGCGTCCCGTGCCCCGCACCCAGCGCGGCCCGCAGCGAGCATGGGCGCGGCGGCCGTGCGCTGGCACTTGTGCCTGCTGCTCGCTCTGGGAGCGCGAGGGCAGCTGGTGGGGGGCAGCGGGCTGCCAG
Seq A exon
GTAAGCGCGAGGACCCCGGGAGGATGAGAACGCGCGGGGTCCTACAGGCTGCCACCCCGCGCCGTCGGAGGCCGCCCGGCGCCGGGTCCTGCCTCCTTGCAAAGTAACTTCTGCGAGCGCCCTGGGCGCCCGGGGCCGGCGGGGGCGGGGTGGGCTGAGGCCCCGGGAGGGGAAGCGGGAGGCCGGAGGAAGAAAGGAAGCGCGACGGCCGCCTGCGGGGCCCGGCATGCGTACAGAGACGGGCGGGGACCCCCGAGCCGAGAGCGGCGCTCCCCCAGGGCCCAGGACCCGGCAGCTGCCGCGTAGGAGATACCGGAGGTGTTCAGAAAGGACGCGCTGGGACTGGAGGGGAGGTGGGGAGATGGAGGGACAGACGACAGGAGCCGAGGCGCAGAGAGAGGGAACAGACAAAAGGGCCCAGGAAGAAGCCCTCAGAAAGACAGCCGCGGGAGGGAAGAGGGGAGAGGAGGCAAGGGAGGGGAGCGAGGAAGCAGTGGACAGCGGAAAGGAGAAAGGCAGATCAAAGGACGGAGAGGAGGAGACAGATGGACACCAGACAGAGAGACGGGAGGACTCGGAGGGGCGTCGCCGAGGGAGGGGACCGAGTGAGAGAGGAAGGATGGAGATGTCTGGGAAGAGATGGACAGATGGACTGTCAGACAGGAGGGGGAGAAGAGACGGACAGACGTAGGGAAGGAGGTGGATGAGAACACGAATAGCAGAACAGATGAGGACGAGGACATCGGAGAGAGGGGGCTGGAGGCACAGGCACACCAGCCTTTGGTCCGGGCAGAAGGAGCTGCTAGGTAGGGGTGTCCCTCTGTGATCTGAGTTTCCTGAAAGGGGCTCTGGGGGCAAAGCTGCACACTGAGCCACTCTTTTCACATTCTTTCTTGTTCTCCTTGGAGAGGGCAGGGAGGGTCCTGTCTTGCTCTCCCTCCACTGAGTCTCGGGAGTCAGAGTCCCACAGAGATCCAGTGCCAGGGAGTTTATGATAGTCCAGCTACTTCACCGTTGGCGCTGAGGTTTCTTCCATGCTCCCGTTCCAGAAGCTGGGCCTTGTTGAGGGTACTGGATAGTCTGTGGGCATTTCTCCCAGGTTTTGGGGTCCTTCACCTTTGTGGGACTGTCCTGTGTGCCTCTCCCTTCCTCTCTGTCCTCCCTGGTGTCTGTCTGTCTCTGCCTCTCCCCCTTCCCTCTGTGGAAACCTGGTGACTCTGGAGCCCCAGCGGCTAAATAAGAAAACCAGAGTTGAAGTGAGCAGCCTGTATCTGAGGGTTGCACAGGGATCTGCAGTTCGGCTCAGCCTGGTTTCTTTGCTCCCAGGTCAAGTTTATAATTTGAAAGGCAGCAGCCCCACCTACCCCTTCCAAACTTCTGTGTTCCAATCCTATTTAGGTGAGAGATGGGAAGGACCTCAGACCCCCCTGGAAACTTTCTGAACCTCACTCTCACCTCCTGACCCACGGGAAGTAGGAAGATGAGCCTCTCTTAGAGGTCCCCCCACATGTTCTGGCCCTCTCAGGCATCCTGTCCTGAGGTAGTGGGTCCCTAGGTGGCCAGCTCTCCAGAAAGCCCCTCCCCCACGACCTCCCCACTGGCCTTGAAATTCGCTCTCCCGGTTTACTATGCTGCCTACCTCTCGGTTCTTGCCTTACTGCCTTTGGACAGCTGCAGAGGTGGACCACACACTTGAACCGAGGTGGCTGGCCTTGGGAGGGATCCTACATCTGTGTATATGTGTGTGTCTGTCTTTTGCATGTGTTTGCGTGTGCAGGGAGGAATCTCCTGTGCTCCTATCCAATGCCTCTCTCCCCTCTGGTGTGGAGCTGGTACCTGGGAGTCTGGAGTGAGGAAGAGGGGTGGGGCACAGAGCTAGAGCCCAGGGTCCAGCCAGAGGTTAAACTCAAAGTGGGCATTAACAGGCACCATGAACTCTAGGGTGAGACCAGATGGATAAAGAGATGGGAACATTTGGAGCCTCCCAGGGGGACTGTCCTCAGGGCAGCGCTGGAAAAGTCCCTTGTCTGCTCACCTGAGTCCTTCTGCCTGTCCATCTGTGTGGTGCTCCCAGCCAGCTGGAAGGAGAGGGATGCCCAGACAAGCTCTTTCTGTGATGGAGCCTAATCCAGTATTCTTGCATTACTGGTCTCAAATCCCCAGTCTAAACCTAAAGTCTGGCTGTTCCCTGAGTAAACTCAGAGTGAGCAATGGAATGAAGGGACAGGGGAGGGAGGGAGGAGGGAGGGAGGAGAGAGGGAGGGAGGGAATGAATCAGGAAATCAGGTGTGTGTGCAGAAGGCCTTCCCACTCTGTAGCCATGGCTGCATTCTGGATTTATGTGCTGGGGATAGGAGGTAGGGTGCACTAGAGCTCTCTGAGCCTGGGTGGTGGCTGGGGGGTCTAGAGGCTGGGCTATGAGTACTGGCTATCTGAAGCCTGGGGTGGCAGAGGGAAAGAAAGGCAGATCCATAGACCTACTCTGAGTGGGAGCCTAGGGGATGATCCCTCCCACAGTTCCACTGCCTTGGGACCTCACATCTAGGTTATCTGCACGCTTCTTGGATGGCCTCTGCTTGGTACCTGTACACCATTCTGCCTTAGTTTTCTTATCTGCAACCCTGAGACCAGATCTCAGTTCTTCTGAGGACTTCTTCAGGAGGAGTATGGACTTGGAAGGATGCCTGAGGGGAAACCTAGACCCACAGAGGTTTTTCTAGCCTTCGGTTTTTCCAACTCTTAAGTGCAGTGGGACTAATGGCTATACCCAATGGGACTGTTATGAAAATAAAGACCAGATGTGAAAGGACGTGTGCCTGGCACAGAGAAGCTGCCTCAAGGATGCTACCAATTTGCCCCTTGTCACATCAAACTGACATGTGACTGTTAATGTTAGCTGTTCAAGTGGTCAGTGGTAGGATGGGGGCATGAACTTCCGGCACAGTCTCAGATGTCTTCCCAGCATGCCTCACCTGGACTTTCCCCTCCTCCGCAG
Seq C2 exon
GAGCCGTGGATGTGGATGAGTGCTCAGAGGGCACAGATGACTGCCACATAGATGCCATCTGTCAGAACACACCCAAGTCTTACAAATGTCTCTGCAAGCCGGGCTACAAGGGGGAAGGGAAGCAGTGCGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010617:ENSRNOT00000017727:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF129472=EGF_3=WD(100=80.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
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]