GgaINT0124742 @ galGal4
Intron Retention
Gene
ENSGALG00000028167 | RBM18
Description
RNA binding motif protein 18 [Source:HGNC Symbol;Acc:HGNC:28413]
Coordinates
chr17:8740329-8741259:-
Coord C1 exon
chr17:8741133-8741259
Coord A exon
chr17:8740416-8741132
Coord C2 exon
chr17:8740329-8740415
Length
717 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGT
5' ss Score
10.65
3' ss Seq
TTCCTTTGCATCCTGTGCAGGAA
3' ss Score
9.19
Exon sequences
Seq C1 exon
GTACCACCTTCTCAAACTCCTTCAGAAGTTCGGCAAAGTAAAGCAATTTGATTTTCTCTTTCACAAGTCTGGAGCTTTGGAGGGGCAGCCAAGGGGTTACTGTTTTGTGAACTTTGAAACCAAACAG
Seq A exon
GTACGTTGCTTTTCTGTTTTAAGGGAGTGGCTTCTTTCCCCATCTCTTTTATGTCAATGTAAAGCTAAAACAGGAAGGGATAAATTAAATGCGTAGATTGCAGAAACCATGAGGGTGTCAGAAGAGCTGTGACACACTGCTTGAGGTCTAAAATCTCTACTGGAATGATTATTCATAACAGGGTGGAACAGCATTGCAACGTGCATTTTTTTAACTGCTGTGGATTGAGTTTTATGGGAGTGTCCCCAGAAGTGAGGTTTCACTGCTTAGTCTAGATAGGACCAAGAGCATAACATCTCTAGTAGGCATTAGCAAGATCTGGCATACGTGTAGGGTATGAATGGGGCATGTAACCACTGTAACGAATGGCAGTGTTTCTAGAGAAACTGGTGTAGCACAGAGCTCCCTCAGCGTGCTGTTCCAATAGCTTCTGCATTTGATTTATTTCAAAACTTGTGATCATCTTCCCCATTTCCTCCCTGCAGCGACTGAAGGAATCTGCCCTGCTGATTTATAAAAGTCTGATTGCTCAGATGGGTGTGGGAGTCTTCCAAGTATTCCTGGGTTGGGATACAATGGGAGAAACATTCTTTGCAGACAGTTAGCTTTACTTTCAGAGGACTGATTTACAAAGAGAAAAGGGTCTTTACATCTGAGACGGTTATGACTGAAGACTTGGTTTGTTTACCGAACTGTCTTCCTTTGCATCCTGTGCAG
Seq C2 exon
GAAGCAGAAAAGGCGATCCAGTGTCTCAATGGGAAGCTGGCCCTTTCCAAGAAATTGGTGGTGCGGTGGGCACACGCACAAGTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000028167:ENSGALT00000044500:2
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=65.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTACCACCTTCTCAAACTCCTTCA
R:
CTTGACTTGTGCGTGTGCCC
Band lengths:
214-931
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]