RnoINT0131903 @ rn6
Intron Retention
Gene
ENSRNOG00000010617 | Scube1
Description
signal peptide, CUB domain and EGF like domain containing 1 [Source:RGD Symbol;Acc:1309015]
Coordinates
chr7:124501988-124504047:-
Coord C1 exon
chr7:124503968-124504047
Coord A exon
chr7:124503238-124503967
Coord C2 exon
chr7:124501988-124503237
Length
730 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGT
5' ss Score
8.4
3' ss Seq
AGTGTCCCCGTGTCTTGCAGGAC
3' ss Score
10.1
Exon sequences
Seq C1 exon
AGGACTACCAGCAGCTAATAGAAGACATCGTGCGCGATGGGCGCTTGTATGCCTCGGAGAACCATCAGGAGATTTTGAAA
Seq A exon
GTGAGTTGTTTGGAAGGGAATCCCTGTGGTTCTGGGAGAAGGGTCAGGGCCATGCCTGCCCTTGCCCTGACTCCTGACCTCTGGAGAAGGGACAGGGAGGGGGGAGGGTGTTAGACCAAGGGCCCTTACATAGGACTGGACCTAGACTGTCTGTCCTCCCTCCAGTCCATGACAAGCCACCTAGGAGATGGGGACCCCAACCTAGTGAAGTACTTGGGCTGAAGTCCTCAGTCTCCCTCTCCCGTCTGTGAAATGGCTCAATGGACGGTGTCTTAAAGTCAGTGGAGTCTACCTACTGCCATTGGGCTTAGATTCCTTCCTCCTCATCCTGCCCACTGCCCTAAGAAGCAGGACACTGTGTCTGTCCTAGAGGGCAAGCTGTGACTGTCACGCAGAGGCATAATCCCAAGGCTCAGAGGATCTGGCTGTCACTGAATGAAACCCGTGCTGGTGATCCACCTTGATATGGTGGCCCCAGCTCGTCCTCTGGACGGTAGGAGCACTCTCCACCTAAGGCAAACAAATAGGGGCCACATGCCTCTGGCACACCCTTGTTCAGCAGTTGCCTTCTATTCCACCAGATGGCGCCGGGGTGCAGTGATGGTTTGACAGGCCCGAGGCTGGCCGGCTGCCCTCAAGTTCCTGGTTCCTCCTGGAACTGCCATTTAGTTTAGGTAGGAGCCAGGTCCCCTGCCAGTGCTCTGTCCCACAGTGTCCCCGTGTCTTGCAG
Seq C2 exon
GACAAGAAGCTGATCAAGGCCCTCTTTGATGTGTTGGCACACCCACAAAACTACTTCAAATACACAGCCCAGGAGTCAAAGGAGATGTTCCCCCGGTCCTTTATCAAACTTCTGCGTTCCAAAGTGTCTCGGTTCCTGCGGCCCTACAAATAACCAGCCAGCTGTCCTGCGTGGGGACAGTGGGAACCAAGTGGGAGGGGAATGTGCCTTCCCTCCACAGCACGAGATGAAAGGAGGCTCCATGGGCCTTCAGGCTGCCTTGAGAAACCCATGATACCTGCCTCTGGCAAAGCCGTCCAGCCTGGACCACCCCCATGGAAGGCCTAGACCCAGCACAGACCCCTTGGTGGGGCTGCCACTCCTGGGTGGAAGCAGTGCTTCAGAAAGCCTTCACCTACCCTCTGCCTCCCAGGACACCTAGAGTACTCCCTCCTGAACCACCGCAGTGGGATCTGCCTGGGCCAGGACATACTGTCCCCACCATGTGGGGAGCAGGACGACTGTGCCCTTGGCCCGATCCGTTTGTTGAGAGAGAGGAGTGTGTCCAGCTCCCTGCAGGCTCTGGAAAGCATGGGCCATTGTCACCCACACAGGGCCAGGCCAGGGCAGGAGGGGTGTGTGGTGGTGCCATCTGGGGAGTTGATAAGCCTGTGCCAGTGCCTGTGGAACCAACACACCCTGCCAGCTCTTCTGGGCACAGCCGGGTCATGGAGCTCAAGGGACTCTGTAAGAGATGGAATAGGTCCTCCAGGAGAGGAGTCCACGTGCTTGTGCTTCGCCTTAATAGACCATCTAAAGAAGTTCTATATATATATATATAAATATATAAATATTAAATATATTCACTTCTCTATGTGGGTGGGTATTTCAGAAGGGTTCTCCTCAGCAACTGTAACACTAACCACTGTTGCCAGCCTCCCCTGGTGATTAAACTGCGCCTCCCAGCGCTTGCCACCTCTGGCCCCATCCCCCATCCCCTCCCCCCGCCCCCCCCGCCCCCCGCCGGCCTGGGGAGAGCACAGAGATATGCTTGGACATGCCGTTGAATGTGACTTGTTGAGGACTGGACTAGGTGTTGTGTTGAAGCATTGACGGGGTGCGGGGGGGAGGGTGCTTCACAAGCAACATCACCACTGTCAACAGAACACAGTGGAAAGCACCCCCACCCACTGTGGGTCCTAGCGCTCACTGACTCTGCACTGTGCGTGCAGGTCACCAGAAACAAGGCCTTCCTCAGGGATGTGCAGGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010617:ENSRNOT00000017727:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
CCTCGGAGAACCATCAGGAGA
R:
GTCTAGGCCTTCCATGGGGG
Band lengths:
358-1088
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]