RnoINT0125079 @ rn6
Intron Retention
Gene
ENSRNOG00000014705 | Rbm20
Description
RNA binding motif protein 20 [Source:RGD Symbol;Acc:1307427]
Coordinates
chr1:274539097-274541565:+
Coord C1 exon
chr1:274539097-274540189
Coord A exon
chr1:274540190-274541503
Coord C2 exon
chr1:274541504-274541565
Length
1314 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
CCCTTTCTCTGGTCTTCTAGGAC
3' ss Score
11.94
Exon sequences
Seq C1 exon
TGCTGCCAAGCTCCTGGACAAGAACCCCTTCTCCGTCAGTAGCCAGAACCCTCTGCTCACTTCGCCAGCCAGCGTCCAGCTGGCCCAGATACAGGCCCAGCTCACCCTCCATCGGCTGAAGATGGCACAGACCGCAGTCACCAACAACACTGCAGCCGCCACTGTCCTCAACCAAGTCCTCTCCAAAGTGGCCATGTCCCAGCCTCTCTTCAACCAGCTTCGCCATCCGTCTGTGCTTGGCACCACACATGGCCCTACTGGGGTCTCCCAGCATGCTGCCACCGTTCCCAGTGCTCACTTTCCCTCAACTGCAATCGCCTTTTCGCCCCCAAGCCAGGCAGGAGGCCCGGGGCCTTCTGTGAGCCTCCCCAGCCAGCCCCCCAATGCTATGGTAGTGCATACCTTCAGTGGGGTGGTGCCTCAGACCCCTGCCCAGCCAGCAGTCATCCTAAGCATTGGGAAGGCGGGGCCAACACCTGCTACTACAGGGTTCTATGACTATGGCAAAGCCAACCCTGGCCAGGCCTATGGTTCTGAAACGGAGGGCCAGCCGGGCTTCTTGCCAGCCTCGGCGTCAGCCGCAGCATCAGGCGGTGTGACCTATGAAGGACACTATAGCCACACAGGGCAGGATGGCCAAGCCACCTTTTCTAAAGACTTCTATGGACCCAGTGCCCAAGGGTCACATGCAGCAGGTGGGTTCCCAGCTGATCAGGCTGGGAGCATGAAAGGAGACGTCGGTGGGTTGTTGCAAGGTACCAACAGCCAGTGGGAGAGGCCCTCTGGGTTCTCTGGCCAGAACAAGGCCGATATTACAGCCGGGCCCGGTTTGTGGGCTCCACCTGCCAGTCAGCCTTATGAACTATATGATCCTGAGGAGCCTACCTCAGACAGGGCCCCTCCTGCCTTTGGATCTCGACTTAACAACAGCAAGCAGGGATTCAACTGCTCCTGCCGGCGGACAAAGGAGGGGCAGGCCATGCTGTCCGTGAGGCCCCTGCAGGGTCATCAACTGAATGACTTCCGAGGCTTGGCTCCACTCCACCTTCCACATATCTGCAGCATCTGTGACAAGAAGGTGTTTGACCTGAAG
Seq A exon
GTGAGTTACCCAAGAAGGGCTGGGACCCAAGTACAGACTCTAGTGGTATCTAGAAGTTTGTTTGAGGACTAGGGCGCTAAACTCATCAGTGCCATAGGTTTAGACCCAAAGGAGTTTTAGAATCACACCCAGTCCTTCTCTTCTCTAAGGCACATGATACTTCCCCTGTATAGTGAAAAAGCAGTATTTCCTCTTTCTTTTTGAGGATCCTTTTCTCCTTTGGACTTTCTAGAAGCTTCAGTTCCTTCGATAAATATGTTGCACTGAATTTGAAAGAGGGATAAGTGGAATTCTGGGTCAAGGGAAAAGATCAATTCTTAGACCAGACCTCGACAAACCATCAAAGAGGACTCAAAATAAACCAAGTGGAGGCAGAGACTCCTGTTGGCGAGGTGCTTTGTCGATAAGAACCTGCCTGGAAGGATGTTTGCTCCAAGGTTTATTGATAATACAGTGAAGTATTTCAAAGCCATAATAAGACAGCTAGCAGACATTAAACTCTTTCAGTGTGCTACTCGCGACTGTATGAGGTAGATGCTGAGGTTGGCTTTTTCTTGTTGCTTTATTGTGTTTTGAAAATGGGTATCATTTAGCTCTGGCTGATCTTGGACTCATAGCTGAGGCTAGTCTCGGCCTCGCTGGGCGCTGGGGTTGTAGGTATGTGCCTACAAGAAGGTAGATACTGTCATTTCTCTCTTCTCACAGATGACAGTTGTCCCAGACCACCTAGGCAGAGAGTGACAGAGAGGAGGTTTAGTCATAGGTGCGACCTCCCCTGAGCCTGCTGTCATGCCAGCCCTCTTCCAGCCTGTCCCAGAGCACAAAACAGTTTCTCCCTAGAGTCACAGCAGCATGGGTGTCTTTCACGCTGCCCAGGTCATGTCTCCCAACTTGAGTGAGACACGCCTTTCCACACGTGAGGGCAGTGATGCTAGGTGATGCTGTAGGCCTCTACCTCACAGTCTTCTTCTGAGGCTCTATAAGTCACTGCACCGTAGACCAGAGAGAAGGAAGAGCGTGAGGTCAGAGATGGGTCAGGGGTCTACGGACAGGAGGCAAGGGAATCTGACGTCAAGTCTGGGTAGCTATCCAAGATGGATACAGGGCACGCAAGTAAGGGGTTGACAAGAGAGACTGGTGTTTGGGTAGCAGACCCGGAATGAGGAGGCATAGGGAAGGAGAGATGGAGATGAGGCGTTCTGGTGGTCCAGCCCCTAGGTGCTCTGAGCTCCCTGATTGGCTGGTGGTAATTACCTTCATCCTCTGCCTCCCCATGGACTCAGTTCAACTCTGGCCCTTTCTCTGGTCTTCTAG
Seq C2 exon
GACTGGGAGCTACATGTGAAGGGGAAGTTGCATGCCCAGAAATGCCTGCTCTTCTCAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014705:ENSRNOT00000054685:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.660 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF121713=zf-C2H2_jaz=PU(51.9=3.8)
A:
NA
C2:
PF121713=zf-C2H2_jaz=PD(40.7=52.4)
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:
CAAGGCCGATATTACAGCCGG
R:
AGAAGAGCAGGCATTTCTGGG
Band lengths:
347-1661
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]