BtaINT0123296 @ bosTau6
Intron Retention
Gene
ENSBTAG00000025848 | RBM3
Description
RNA binding motif (RNP1, RRM) protein 3 [Source:HGNC Symbol;Acc:HGNC:9900]
Coordinates
chrX:91768679-91769140:+
Coord C1 exon
chrX:91768679-91768798
Coord A exon
chrX:91768799-91769033
Coord C2 exon
chrX:91769034-91769140
Length
235 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGA
5' ss Score
6.65
3' ss Seq
CTTTCCCCTGTCTTTCCCAGTGG
3' ss Score
10.33
Exon sequences
Seq C1 exon
GACTTGAATTTACTGCCATGTCTTCTGAAGAAGGGAAGCTCTTCGTGGGAGGGCTCAACTTCAACACTGATGAGCGGGCTCTGGAAGACCACTTCAGCAGCTTTGGACCTATTTCTGAGG
Seq A exon
GTGAGAAATGGGCCAGGTGCGTGATGGGGGGATTGTGGAAGAAAGTCTGGGTCCCATGCATTTCAGGAAACAGGAGAGAAAGGTTAGAACCCCAGGCCTTACCCTTTTCCTGCCTTTGTTCCTAGGCCTAAGACTGAGAACCCAATAAGTTTCCATTGAGTTTTAGTGGAAGGAGGGTCCATTCTTAACACCGTTTACTACTTGTCCTCTTAGCTCTTTCCCCTGTCTTTCCCAG
Seq C2 exon
TGGTGGTCGTCAAGGACCGGGAGACTCAGCGATCCCGGGGTTTTGGCTTCATCACCTTCACCAATCCGGAGCATGCCTCAAATGCCATGAGAGCCATGAATGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000025848:ENSBTAT00000024034:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.043 A=NA C2=0.542
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PU(38.0=77.1)
A:
NA
C2:
PF0007617=RRM_1=FE(49.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAATTTACTGCCATGTCTTCTGA
R:
TGGCTCTCATGGCATTTGAGG
Band lengths:
212-447
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]