DreINT0125240 @ danRer10
Intron Retention
Gene
ENSDARG00000044255 | rbm18
Description
RNA binding motif protein 18 [Source:ZFIN;Acc:ZDB-GENE-040426-1764]
Coordinates
chr10:9527448-9528380:+
Coord C1 exon
chr10:9527448-9527574
Coord A exon
chr10:9527575-9528299
Coord C2 exon
chr10:9528300-9528380
Length
725 bp
Sequences
Splice sites
5' ss Seq
GAGGTTATG
5' ss Score
0.59
3' ss Seq
CTGATTTCTGTCCATCGCAGGAG
3' ss Score
9.27
Exon sequences
Seq C1 exon
GTATCACCTAGTGAAGCTTCTGGAGAAGTTCGGGAAAGTAAAGCAGTTTGACTTTCTGTTTCACAAGTCGGGTCCTCTGGAGGGCCAGCCAAGAGGATACTGCTTCGTCAACTTCCACACCAAAGAG
Seq A exon
GTTATGTTTGTTCTTCTTTACAGAATTACCCAAAATACCAAAGGAAGTGTTCGTTTTGATCTAGTAATGTAACACAAGTCCTCAAAAGGCACCCAGAAAGCTGATGGAGATAAGGCACTGTTGCTCTCTAGAGTGTAATGTGAGGCAGTCCCAAGAGTGTTGTTGAAGGGGAAATGTGTGTTTACAGATCCCGTTCACACCCTTCATAAGAGCCTGGAAAACTAGTGATCCATCATCAGCCATTATTGTTCCCTATCATTACACCATACTTCTAGCAACTGCCAAAAAACAGAGGATGCCAAATAAAAACACTGTCTTCGAGGTGGACAAATAGAGGGCTTTAAATGTGAACTAATAATTTACTCTTGATAGTGTTATAGTAGTATAGTGATATTTAGAGGCAAATGCATGATTGTGATTAAGGCGGCCCAATCCCAATTCTACCCTTAACCCTACCAAGGGGTACGGAAATTTCCCAGAATATACCATCTACAACAGCAGCATGGCTGCATACGGAAGTAAGGAGATGCACAAATGAGTATTTTTGTCATTATTACAAATTTTTACAACAAACAAGTTAATGTTTAATTACATTCATAACCGTGTTCATGTTTTACCGTCATGCTTTAAAAATGTTAAAATAAAAATCTATAAATTTTGCTACAAAAACAGAATTTTGATTGGGTCTAAGTGTGATAATCAGCACTGATTTCTGTCCATCGCAG
Seq C2 exon
GAGGCTGAGCGGGCTATTCAGTGTCTGAACGGGAAGTTGGCACTTTCTAAGAAGTTAGTGGTACGGTGGGCTCATGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000044255:ENSDART00000064975:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=FE(56.8=100)
A:
NA
C2:
PF0007617=RRM_1=PD(25.7=70.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCACCTAGTGAAGCTTCTGGAGA
R:
CTGTGCATGAGCCCACCGTA
Band lengths:
206-931
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]