RnoINT0144358 @ rn6
Intron Retention
Gene
ENSRNOG00000038948 | Stab2
Description
stabilin 2 [Source:RGD Symbol;Acc:628822]
Coordinates
chr7:27434227-27435876:-
Coord C1 exon
chr7:27435769-27435876
Coord A exon
chr7:27434359-27435768
Coord C2 exon
chr7:27434227-27434358
Length
1410 bp
Sequences
Splice sites
5' ss Seq
CTAGTAAGT
5' ss Score
8.78
3' ss Seq
TCCTTGTATGTGTGGTGCAGAAG
3' ss Score
5.5
Exon sequences
Seq C1 exon
CATTACAACCTGGCAAGTGCAATCGAGGCTGCAGATGCTTATACTGTGTTCGTGCCAAACAATGAAGCCATCGAAAACTATATCAGGGAGAAGAAAGCCACATCTCTA
Seq A exon
GTAAGTGTGTCAGCCCCAGCAGTCAACATCCTCTAAGATTCATTTTAGGCTGGGCTGTGGGCACAGACCTTTAATCTCAGCACTTGGGAGACAGAGGCAGGCAAATCTCTGTGAGTTTGAGGCCAGCCTGATCTACAGAGCTAGTTTCCAGACAGCCAGAGCTATACAGAGAAACCTTGTTTCAAAAAATCAGAAAAAAAAATGTTTTTAATGGTGTTGGGGGGAGGGGTTGGTACATGAGTACAAATGCCCTCAGAGGCCAGAGGTGTTACATCCAAAGGTGTTATAATTTCCCTGAAGCTGGAGTTCCAGATGGTTGCGAGCTACCTGATATGGATATTAGGAACTGAGCCAGGGCTTCCCTGAGAGTAATACTCACAGTTAACTCCTGAGCTGCCTGTCAATCGTCATCAATATTTTCAACTCACCAGTCATATGCCATTTCATGTTCTTGTCAAAAACCTATTCTATGTACTCTATGTACTTAATAGTGATCCAAGCATGTCACAAACCTTCCCATGTCACAGCTGCCATGAACACACACACACACACACACACACACACACACACACACACACACACACACACCAGAGAGAGAGAGAGAGAGAGAGAGAGGGAGAGACTAAAATATTTAACAAAAAAATGTAAACTGAAGACATTTACTTAGTGTTCATTAGAGTATGTCTTCTCTTTTATACATAGAAAAAATGGCTTTAATATCTCATTGGGGATACAAAATGAAATCAACTGAAAATACTAATTTGCATATCAAAGAACCCTTTATAATTATAGTCTAAACCACTTATGTAGGCAGAAACCACTGTGCATTTGTTTGTAGATTTCTAACACCAGAAAGGAAAAAACAAAAAAACAAAAAACAAAAAACAAAAAAAAAAACACAAAACACCCCTTTTGCCACTGCAAAAAAAAAAAAAAAGTCTTTAATTCCAAAAGTCTTTGCATCAATGTAAAGGATTGCAGGTATTTTGGACAGTGTTTTTAAATGCTTATTTCTACTTGGGAGTATTTTGTTTTCATAGTAATTAAAATACTCGGAGCTACTTTCCTATTCTCACCCCTCATATCCTTTTAAAACTATTCTATCCAAAAATCTGTAACTCCATGGCACTAACTGCTAAGGCTCGCCTCGCGTTGAATATTTGAGGCTGAAATAGTTGTAATCTTAAATCATTTTTAAAAACCTGCTCACCTCTTTCATTGTGCCATCTAGACGTTCTTAAGCATCCGACCTAGAAATTCACGACTCACCCTATTACCTGACTCTTCTGTGCCCTGATGTCTTGCACATGGAAAGCCACTTCTTTGCAACCCCATGGTTCTGGCAAGTAGAGCTGGGTATAGCCAAGTAGCCAGTTCACTGACTGACTTTTCCTTGTATGTGTGGTGCAG
Seq C2 exon
AAGGAAGATATTCTACGGTACCATGTGGTCCTGGGGGAAAAGCTCCTGAAGAATGACTTGCATAATGGCATGCACCGAGAGACCATGCTGGGGTTCTCCTACCTCCTCGCCTTCTTTCTCCGCAATGACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000038948:ENSRNOT00000059538:36
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:
PF0246917=Fasciclin=FE(29.2=100)
A:
NA
C2:
PF0246917=Fasciclin=FE(35.8=100)
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:
CATTACAACCTGGCAAGTGCA
R:
TGGTCATTGCGGAGAAAGAAGG
Band lengths:
239-1649
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]