RnoINT0131075 @ rn6
Intron Retention
Gene
ENSRNOG00000002104 | Scaf4
Description
SR-related CTD-associated factor 4 [Source:RGD Symbol;Acc:727896]
Coordinates
chr11:30398356-30401082:-
Coord C1 exon
chr11:30400933-30401082
Coord A exon
chr11:30398545-30400932
Coord C2 exon
chr11:30398356-30398544
Length
2388 bp
Sequences
Splice sites
5' ss Seq
AAGGTACGC
5' ss Score
10.4
3' ss Seq
AATTTAAGGTTTTTTTTCAGGTA
3' ss Score
6.66
Exon sequences
Seq C1 exon
CTTCAGCAGATCCTTCAGACTTTTCAACAACCTCCAAAACCACAGTCTCCCGCCCTTGACAGTGCTGTGATGGCTCAGGTTCAGGCTATCACAGCTCAGTTAAAGACAGCTCCTACACAACCACCTGAGCAAAAAACTGCATTTGACAAG
Seq A exon
GTACGCTTCTCTCACATCACCCCACTGTCTGTCTTACCCAGAGCAGCTTGTGAGACTTCTCTTCTGTAGCTTCCCTGGGTTGTTCTTTTGTTTGTGGTTTGGTGATTTTTTTTTCTCCTCAACATCAAAATGTTTATTTTTCCTGGTGTGTGATACAGGCTCGATATAAAACATTTACAGAATAAAGAAAAGTGAGCAAAAGGATATTGTTCACTAGCCCACTCGTCCACCCCTCCCACTGGTGCTTAGTGTCTGTTTTGTGTCTTCTCCAGAAGTAATGTACTGTGGGCCTGTGCTTCTGTGTGATCTTCTGTTAGGTCTGTCTGCATCCAGCTTGAACGGTTATTAAGATTACAGTAGACAAGGCATCTGAGGTTATCTATTTTGCTACTGATAGACATTTGCTGTTGCTGTGATAAACATAGTTACCATGTCTGTGACGTGAGTCCTAGGGGGACTTCAGCATCTTTCTTCTGTTTACTCAGTGGGCCTTGCTATCCTTAGAAATTCTGTTTCTGTGTGACTGTGACCAAATACCCAAGAGAGCAAATTGAAAGTGGGAAGATCTATTTTGATTCTTGGTGTCAGAGAGTTGAATCCTTGGCTGCAGCAGGACCAAGTGGCAGATGAATCTCTTCAGTTTTTAAGGGGAAGGAAAAGGACCTGGACCAGGTGAAGCTTTGAGAACTGTTCCCCTGGTGGCTTTCTTACAACTAACTACACAAATTTTCTCCACCACCCCCCCCCCCAAAAAAAAAAGAAAGAAAAAAGAAAAACAATCACACCACCAGCTGGGGACCAGGGTTGAGCATGAGCCTGTGGAGGAGCAACTGACAGTAAAACACACTAGCTATACTGAAGGTGTGCCTGGGCTGTGTGTCTGCAGGGTTATACCGCATGGTTCTTCTGTCTCTCATGGCTTTCTTAGGGTTATGGTTGTCTAAAAGTTCTTGTTCTGGTTTCACATAAAAAAATAGAAAATATATATTTGAAAATCATAGCATTAAATGACTTGCTTAATATCATGGTCTCTAAAATTTATGATTCTGTCTAATATAAGATAAAAACTTTATCACCGGGGTTGGGGGTTTAGCTCAGTGGTAGAACGCTTGCCTAGCAAGCACAAGGCCCTGGGTTTAGTCCCCAGCTCCAGGGGGAAAAAAAAACTTTATCACCAGTACTAAGTAATTATGTGGTAGGTGAATTCCAGTTTTCATTATTTTATCTTAGTGATTAATGAGTTACTACTGACTTTAAGAAAGATTGGGTTAAATTTTGAGTGGGGGGGAAAACCTCACAGGGGGCTAGAGAGGTGGTATAGCTAGGACGTGCTTGCATTGTGGTAAGCATAATGACTGCGGTCACATTCCCAGTGCTGTGTGGAGTTTGCTGTCAGACGGTCTAGCCAAGTTTATGACCCAGAGAAAGACCAAAGACAGTTAATGAACATACCCAGCCTAGAGCTGGTGAACACACACACACACACACACACACACACACCCTTCCTGAATTTGTGTTTGTAGGGAGAAACAATACAGAGTTATAAAGTAGACTGGTTTGAAAAGGTACGTTTGAATGTGTGTGCGCAGGTCTGGTTCCGTGTACAGGTGAATATAAATCCCTTGTTATTTATCATTTGGAAATCTGTTTGTGCATTATATTTGTCTCTATTCCTTCTGGAGTGGAGTTTTTTACAGTATGGTTTAAGGTTTTGCTAAGCGTATATATTTATTTTACTTATTAAAATACCTAATTTACCCTTTTTTTTTTTAATTTACTATGATGTCTTACTTGTGTTCATGTTTAGTGCTTGTTTGGTTGGTTGGTTTTTGGCCAGCGCTTTGTCACGCCAATGTTTATTTTTGCATCTTGATGGTTGAAGTAACATGTATCTGGTGCTGGGGATTGAACTAAAAAATCTTAGCATATGCAGATTCCTGAGCACCCAGGACATAAATAAGAGGGCACACTTATTTCCAAATGTACCTCTACTTGACTTTCTTCTTTTTCAGGCTTCGCTGTGCTGTTGACCTTAGGTATGGGTTTTGCAAATAAACCACAAGTGGTATCTATGGTCGGGTAGATAAATGGAAGGGAAGATTTTTCTTAGATTTATTTTATATGTATGAATGTTTTACCTGGGTGTATATACATGAACCATGTGAGTGCCTAGTTCCTGTGGACATCAGAAAAGGCTTCAAATTCTCTGGAACTGGAGATAAAGATGCTTTTTGAACCATCATATATGGGTGCTGGGAACTGAATTGGGTCCTCTCTAAGAGCAGTCAGTGCTCTCAACTGCTAAGACATCTTTGCAGCTAATGAGATTTTCTTAAAGAATTAGTTTGTGTACGTATAGAAATTAGCAAATTTAAGGTTTTTTTTCAG
Seq C2 exon
GTACATGAGCAGGCTCTAAGTCCATATAGCGTTAGCAATGTAGACCTTCCTGAGAACATCCCAAAGGGCAGCAGGCTAGAAACTGGGGCAGGTTCTGTGCTGTGTTCCCTGGAAGCCCTTCTTGAGGAAACAGTTCTTGGGAAAGATCATGTCCAGATGTCCGGGGGCCACTTACTTGCTGCGTTCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000002104:ENSRNOT00000002881:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.900 A=NA C2=0.365
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:
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]