RnoINT0144380 @ rn6
Intron Retention
Gene
ENSRNOG00000038948 | Stab2
Description
stabilin 2 [Source:RGD Symbol;Acc:628822]
Coordinates
chr7:27393434-27395100:-
Coord C1 exon
chr7:27394954-27395100
Coord A exon
chr7:27393491-27394953
Coord C2 exon
chr7:27393434-27393490
Length
1463 bp
Sequences
Splice sites
5' ss Seq
CCGGTCAGT
5' ss Score
7.53
3' ss Seq
TCTCTCGCATTGCACCCTAGGGG
3' ss Score
7.84
Exon sequences
Seq C1 exon
GGTGAGCTCTTTCTAAACGAACAAATGTGCAGGATCATACAACGGGGACTCTTGTTTGACGTGGGTGTGGCCTATGGCATTGACTGCCTACTCATGGATCCTACCCTAGGTGGCCGATGTGACACTTTTACTACCTTCGATATTCCG
Seq A exon
GTCAGTCCTAAAACTACAAAATAGGGAAAGAACCTTGTACCAGAGACCAGCCCTGGTGATCCAACATAGGCCTCAAGGAAGAGCCATTTTGAGACCAGGTCCCAAGAAACCTGAGGGCCAATAGACGGCATTCTTCAAACTCAGAACCAACAAGCATCTGCTTAGCCAGTTGCAGGCCTTGAGTGTTCTTGGTTAGCCACCATCTACCCATGATTCCCTCATCACTAAGGAAGCAGTGCTTGGATACCAAATGCTAGCCTTCTATGGTGCCATTCATTTTCAAACCCATCCATTCACTTATCCATTCAACAAACATTGTTCTGAATTCCTACCAGGTTACATCATATATAAATGACATACTTGGCAATTAACAAAAATGGTTCCATATTAATGTGTGTATACATAGGAATATGTATGCATACATACATACATAATATATGCTCTACACACCTTCATTCAACTTCCTATTCATCCAGTTTGCCACACTGAAAGATCCTGGGTCATGGGCGCTCCAATCTGCAAAATATGTCCACCGTACAAAATATGTTCCCCTTCCTTCGTCCAGCCAGTAATTACAGATTAATACTAGCTTCCCGCTGTTCTGCTCCGTGCTCATCTGACCCCAGAGCAACCCAATAGAGTAGCTGCCCCCACCTCTACCGTATAGACTTGGAAACCCAAGGGGAAGTGACGACATAGGAGAGCTTGTCACTGTACCAAGTCAGCATCTGGCATCTCTCAGTCTAATAAATAACTCAGTTTTAGGATCCCATCTTAAACAGGAGATGAAAGGTTTCTTCCCCTGCTGTATGAGGTGTAACTTTCTTAATTTGTAGAATGTATCCATACACCTTTTTCCAGCTAGTTAGTTCCTCTCGACAATTCCCCAGAGGTCAAACGGCAGCGAGAAGTATTGTCCCTGTGCAACGCCTTCTGAAAACTAAAGTTCAGAGCATATCAGCGTTTGGTCAGAAGTCTCACAGCTAACTTAAAATGCATTCCCATGTTCCCACATCCCCACTGCTACGGTGTGCCCGTACCATACTTCCTGGGCCCGGCTCTGTACAACAGGGGACTGATTTCAAATGGGCCTCCAATACAGACCTCAGAATTCTCCAGGGCAAAGTGAAGTGTATGTGTTTATACGATCTCCATCATAGCCATATCTTAATCAGGATTAAGGGGTGGTGTGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAGCAGGCCCACAGTGCAGGGACTGCAGGCATGCACCACCATGCCCAATATTTTATGGGATTGAACTCTGGTCCTGTTTGTGTAGCAAGCACTTTACTGGCTAAACCATCTTACCAGATTGAGTTCCTAATTAGCTCATGCAGACACTAGCCAGGAACGTCTCCTTGCAGTTGCTAATATTCTCACTATTAAGGTCTCTCGCATTGCACCCTAG
Seq C2 exon
GGGGAGTGCGGGAGCTGCATCTTCACTCCCAGATGCCCACTGAAGAGCAAGCCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000038948:ENSRNOT00000059538:59
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=PD(24.1=65.3)
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:
GGTGAGCTCTTTCTAAACGAACA
R:
TTTGGCTTGCTCTTCAGTGGG
Band lengths:
203-1666
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]