BtaINT0123469 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017830 | RBMS2
Description
Bos taurus RNA binding motif, single stranded interacting protein 2 (RBMS2), mRNA. [Source:RefSeq mRNA;Acc:NM_001034365]
Coordinates
chr5:57181192-57182860:-
Coord C1 exon
chr5:57182769-57182860
Coord A exon
chr5:57181350-57182768
Coord C2 exon
chr5:57181192-57181349
Length
1419 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
TTTCACTTTTATTTCCATAGCAA
3' ss Score
8.72
Exon sequences
Seq C1 exon
GCTATGGCTTTGTGGACTTCGACAGTCCTTCAGCAGCACAGAAAGCAGTTACAGCACTGAAGGCCAGTGGTGTACAAGCGCAGATGGCAAAG
Seq A exon
GTAAGGGTACTACCCCACGTCTGTTCCTCTAGAGGTGGTAGTTAGGTAGTTAGATTGAAGGACTCCAAGGTGTCCAGAGGACTTAAGAGCCACGTGGTTGAAGGGCAAGGGCTTTCTGCAGTGCGTTTTGACTATATCTAGTCTCAACCAGGGCCCCACTGAGTGCCTCTGCTGCTAGAGGAAGGTGGTGTTCAGAACCCATGGCAGGTAGCTCTGTTAACTCTCTTCCTCTTATCAAGTATTATAAGCAGGCAAGAGGGTCCAGAGGCGTCTTCCCTTCCTCCAGTTGTTTCCCTATCTCCACCCTCGTCCCACTTCCCTACCAAACAGCTCGTGGTATTTCTGCAGCATTCTCTGAAGAAGCCAGTTGTGCAACTCCAAAGTTCAGAACAATGCTTTCCACCTCCCAGCACTGTTCCCTGTAGGAACGGGCTGGGGTGGGGTGGGTGATATGTAGGGTGTTGGGGGTATAGACGCCACAGAGAGAAAGGAAATTATCCCTTCCTTTCTCCCGTCTGTCATTTAGGCTACTAGAAAGCTAGAGACTTTTCCCTCTTCTCTTAGGTGGAGTTACCCTCTTGCCTTTCTAAGGTCATTGTGAATACCTGAGAGGGGCTGATGCAGCAGGCCTGCCTGCCAGCCATCCTTTCCTGTAATGGTTGAAGAAAAAGAAAGCCCTGAAAGGAAAGGCAGGAGAGGGAGTAAGGTTGCAGCTGACCTGCTGTCTGGGGCAGAGTGACTGCTTAAATTCTTAGCAGCACCGCCCTGGGAAGTTGTTGCCATTTTACAGAGTCTGCCCCCTGGAGGTGCTCTCCCACCTCTTCTTTGTGGAGAAAACCCCTCTGACATTGGAGTGACTTCAGACTTCCTGTGAGACTGGAACTTCTGGGGTGACCCCGTGTGCTGTACATCTGGCTCTTGGTGTAGCCCCCAGCACTTCCCTTCTCTCTTCTTCCAGCTAGCCCTCCATCAGGGAGTGTACAGACATTCCTGCTACTAAGAGGAGTCTGCTGTGGCCGGAAGAGGGGGAAGGGAGATTACTCAAAACAATCCAACCCTGGAAGCGAGGCAGTCCAGGAGAATCCAGCCTCTGGGACAGGCTGCCGGCTGGGAGAGAGGAGTACTGCTCTGCCTGGTTCTTAAAGCGACAGCCCAGAACTTCGTCCCTGACTTGTCTTACGGGCTCGGGCTCGTACAGTGCTAGAAATAGTAGATCTGTGGGGTTTTTGGCCTAGACTCAATATATGATGCATAACCCATGGTATTGGGACTAGGTGTTACAAATAGTTGCTAAGATTCTCTTTGTTCAGTTATCCCTTCTTCCTCTCTCTTTTCTGAAATGTCATTTTGCAAATAACGGCTAAGGGTGGGAGAGGGTTAAGAGATATGAAATTCATTTTTTCACTTTTATTTCCATAG
Seq C2 exon
CAACAGGAGCAGGACCCCACGAATTTGTACATCTCAAACCTCCCGCTGTCAATGGATGAGCAAGAACTGGAGGGAATGCTGAAGCCCTTTGGCCAGGTTATCTCCACTAGAATCCTTCGAGACACCAGTGGGACCAGCAGAGGGGTTGGCTTTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017830:ENSBTAT00000023705:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.290 A=NA C2=0.377
Domain overlap (PFAM):
C1:
PF062597=Abhydrolase_8=FE(27.3=100),PF0007617=RRM_1=PD(38.8=83.9)
A:
NA
C2:
PF062597=Abhydrolase_8=PD(9.1=18.9),PF0007617=RRM_1=PU(65.7=83.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTATGGCTTTGTGGACTTCGA
R:
CAAAGCCAACCCCTCTGCTG
Band lengths:
246-1665
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]