GgaINT0046607 @ galGal4
Intron Retention
Gene
ENSGALG00000012479 | RBM43
Description
RNA binding motif protein 43 [Source:HGNC Symbol;Acc:HGNC:24790]
Coordinates
chr7:34600091-34601003:-
Coord C1 exon
chr7:34600909-34601003
Coord A exon
chr7:34600829-34600908
Coord C2 exon
chr7:34600091-34600828
Length
80 bp
Sequences
Splice sites
5' ss Seq
AATGTAAGT
5' ss Score
8.62
3' ss Seq
TCTCTAATTCGCAATTCTAGGTC
3' ss Score
8.71
Exon sequences
Seq C1 exon
TTGTAGGGAGTGTTCTACAGAAGAATGAGCATCGACTAGAAGACAGGAGGCTGCCCAGATACTATCCTCTGAAAGTAACTGCTTACTGTGAAAAT
Seq A exon
GTAAGTTCATCTTAGTTTATCTAGCTGTGCTTCCTTAGCTATGTTAACCATTACCTAACTTCTCTAATTCGCAATTCTAG
Seq C2 exon
GTCTTCAGCTCTGTCACAGCTGTCCTCGATATGTCTGTTTTCAAATATAAATTTGTTTTGGAGGATCTAATACAAGAACTTAAAAAGAAGAGCACAGCTTTGAGCTTTGGTTCTTTACAATCCAACGGGCATATTTCTGTTCAAGGGTCATTTCCAGCAATGAAATGGCTAAGAGACTTCCTGTTACTAAAAGCAAAATCCCTCTCAGAGGACAAAAATGAAGAAAGTAAGTCCCATCAGAGACCAAAGAAGAGGCTGCAGAGACACAGACTCACCAGAGAGATGAATAATTTTGTTCATGATGCTGAAGGGGAAAAGCAAGTGGTTGTTCTTGACACAGATGTATATCACTATATGAAGTGCTTCTTTTCCAAGGAGCTCCTCGCAAACACCGATGTTGTGATTTCTGACGTCACTGATGGTGATATAACTACCCTACATCTTCAGAGAGGCAGAAGCAGGCCTGATGCTGGACAAGTATTAAGAGTCAAGGAGAAAATTGAAAATCAGTCTATAAAACTTCATAAAAGTTTACGTAAAGAAAGGATCAACTTTGAGAGGTGCATCAGAGATAAGAAGAAATACAGATCGGTATGTGAAAGTGTAAAATCCCGCTTCCCTAATGTTTTGTTTATTCCTTGTGATACTCATATTGATTTGATAGGAAGTTCTTCTGCAGTTTTTGAATTTAAACGAGAAGTGAACAAAAAGATGCAGGGCCTGTTTCAAAACAGGTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012479:ENSGALT00000020389:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.031 A=NA C2=0.122
Domain overlap (PFAM):
C1:
PF142591=RRM_6=PD(23.3=53.1),PF072928=NID=FE(39.7=100)
A:
NA
C2:
PF072928=NID=PD(46.2=14.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGGAGGCTGCCCAGATACTA
R:
GCCCGTTGGATTGTAAAGAACC
Band lengths:
182-262
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]