RnoINT0155155 @ rn6
Intron Retention
Gene
ENSRNOG00000001783 | Tra2b
Description
transformer 2 beta homolog [Source:RGD Symbol;Acc:619886]
Coordinates
chr11:82386440-82387741:+
Coord C1 exon
chr11:82386440-82386628
Coord A exon
chr11:82386629-82387625
Coord C2 exon
chr11:82387626-82387741
Length
997 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGT
5' ss Score
9.82
3' ss Seq
AACTTTTTTATCTTTTGAAGGCT
3' ss Score
7.45
Exon sequences
Seq C1 exon
GCAAATCCTGACCCCAACTGTTGTCTTGGAGTGTTTGGATTGAGCTTGTACACCACAGAAAGAGATCTAAGAGAAGTGTTCTCTAAGTATGGCCCCATTGCTGATGTGTCTATTGTGTATGACCAGCAGTCTAGACGGTCAAGAGGATTTGCCTTTGTATATTTTGAAAATGTAGATGATGCCAAGGAA
Seq A exon
GTAAGTAAATTCTTTGCACTTTATTTTAAAACACCAATCCTGTTAACTTCTGATAACCAAGTGATTGACAAAGCAATTTCTATTTTATAGTATATAAATTAAGATTTAAGGCACACAACTGTAGATTTGAGTCAGAAGCTAAGCTTCATTAAGGGTCTGGCTCTAACCTGCTAATGTATTTGACTTGCTGTTTCTGTAATCCTGTGTTGGTACATAAGCCATGAAGTATCATGGCTTGGTTTTTTTCCCTCCCCTTCTGTTTTAAAGGTACTTGTTAGCAAATAAGTGAATTCATCATTTGAATTTCTTGCCTGACTCAATAGAAAGTGAGATTGTGATTACCTGTTTAGAAATGTGCTACTTTACATTTTAGACCCTAAATTTATATGTCCATGAGTATCTCTTTGCATTGTGTATGCAGTGTCTCTGGAAGCCATCAGAGGGTATTGGGGCTCCTGGAAGTGGAGCTACAGACCGTAGCATGCCTCTGTGGGGATTGAATTCCACGTCCTCTGGAAAAGCAGCCAACAGTGAACTGCAGAGCCGTCTCTCTAGTCCATGCTCATTTTAGTGTAAAGAGAAATAGCTAATAACGAGTCTGTCATTTATTGTCGAAACCAAGAAATAAGCTTTTGATACAATTTGAAAAGCCAATCAAGCCTTTTTTATTGAGGCTTTTGGTTTCCATAGCAGGCATTTTGAATGATAAAATGTCAGTGACAATTTTTCTTCTATTTCCCAACAGCTGAGTGTGAAGTGGGGGAACGTTTGGGCTCTGGGGCTTCATAGATGTCAGTGTGCTTCATGTGTGTATAGTTTCAGCACTTAGGATGTCACAGACAGGTTAGTCATGCTAAGGCCGTCTAAATCTGTAGTTAGGTAAACACTTTGTAAACTCATTATAAATTGTGGGTGGGGTTGGTCCCCTGGCCAAAAATAGCTATAAGATAATTAGATACATTGTCCAGGATGTGTGTAACTTTTTTATCTTTTGAAG
Seq C2 exon
GCTAAAGAACGTGCCAATGGAATGGAGCTTGATGGACGTCGGATTAGGGTCGATTTCTCTATAACAAAAAGGCCCCATACCCCAACACCAGGAATTTATATGGGGAGACCCACTTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001783:ENSRNOT00000002429:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.111 A=NA C2=0.667
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PU(76.1=85.7)
A:
NA
C2:
PF0007617=RRM_1=PD(21.1=38.5)
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:
TCCTGACCCCAACTGTTGTCT
R:
GGTCTCCCCATATAAATTCCTGGTG
Band lengths:
294-1291
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]