RnoINT0125081 @ rn6
Intron Retention
Gene
ENSRNOG00000014705 | Rbm20
Description
RNA binding motif protein 20 [Source:RGD Symbol;Acc:1307427]
Coordinates
chr1:274543138-274543891:+
Coord C1 exon
chr1:274543138-274543229
Coord A exon
chr1:274543230-274543793
Coord C2 exon
chr1:274543794-274543891
Length
564 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGT
5' ss Score
9.25
3' ss Seq
TGGTATCATTCATCATTCAGATT
3' ss Score
7.16
Exon sequences
Seq C1 exon
TGCTGGCCTCCGGAGTATATGTGCTACAGGAGAAGGGACGCTGTCTGCCTCTGCAAACAGCACAGCTGTTTATAACCCCACTGGAAATGAGG
Seq A exon
GTGAGTGGAAGAGGCCTTCAGACGGCAGCTGGGCGTAGAATGCAGTCCTCGGGTCATGTTCTACCTCTGAGCTCTAGTTCTTCCCCGATAGGAGCCTCCTGAGCATGTGCAGATGGGTGGATCCCAGCGCTGACAATGTTCTCTTGGGTATTTTAGATCCTCCCTGTGTCAGTTACAGTGGGCCAAACACTAATAAGTATAGCAAGTGAAAATACCCAGTGTTCTCTTCTCACACATCGGAGCCGTGAACACCCATGTAAGCATATGTGTGCGTATTTGGTGAGACTGCCTCTTGTTGGTCTCCAGCTATGGACTGGGCTTGGGCGACTGACCAGAGAGCCTCAGAGATACTCCTGTCTCTGCCTCCCCAACACTGAAATTACAAGCAAGTGCTACCACACCTGCTATTTCCTGTGAGTTCTCAGGACGGAACTCATGTCCTAAGGCCAGCAAGGCAAGCATCCACCGACCAAGCCACCTCCCCATTAATGAATTTTGAAGGTCAGGTTTGTGACTAGGTTATTCTTTTTTTTTTTTTTTAACCTGGTATCATTCATCATTCAG
Seq C2 exon
ATTATACCTCAACTCTTGGAACATCATATGCAGCCATTCCAACAAGGGCCTTTGCTCAATCAAACCCCATGTTTCCTTCGGCTTCCTCTGGGACAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014705:ENSRNOT00000054685:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.125 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
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCTGGCCTCCGGAGTATATG
R:
ATTTGTCCCAGAGGAAGCCGA
Band lengths:
190-754
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]