GgaINT1023460 @ galGal4
Intron Retention
Gene
ENSGALG00000008697 | RBM20
Description
RNA binding motif protein 20 [Source:HGNC Symbol;Acc:HGNC:27424]
Coordinates
chr6:25645540-25646057:+
Coord C1 exon
chr6:25645540-25645631
Coord A exon
chr6:25645632-25645965
Coord C2 exon
chr6:25645966-25646057
Length
334 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAAT
5' ss Score
6.38
3' ss Seq
TTGTGTAATCCATTATTTAGATT
3' ss Score
5.63
Exon sequences
Seq C1 exon
CACTGGTATCCGGTGTGTGTTAAGTTCAACAGATGGAACATTGCATATATCGCCAAATAATGCAGCAATTTTCAGTCCATCTAGTATTGAAG
Seq A exon
GTGAATGGTTGCATGTACAATAATTAAAAAAACCTATTTTTAATGAAAGGGGGGTTTCAGTCTTTGGGGAGAAGTGGGCATATCAAATGATGCATAATGCAGGTTTCCAGGTAAAATAGATTTTAGACATCATATGCAGAAATACTTAAAGGGCAACCTGCCTTTCAAAATAGGAACTTATTTTTCTTTCCAACAAGTAGTTGTTTCCACAGTACAATGAAGCAGTGGTGTTGAAATGATGACATGAATTGTTACGTAAATGGGGCATTGCTTACTGAGTCAAGATAATAATATGAATCAAGATTTTCACAAAATTGTGTAATCCATTATTTAG
Seq C2 exon
ATTATCCACCAAATGTCGGCTCATCTTTTATCACTACGTCAGCAAGATCCTTTGGCCAGCCAGGTGCTACATTTCCTTCTCTTCCATCAGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008697:ENSGALT00000014156:3
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTGGTATCCGGTGTGTGTTA
R:
CCCTGATGGAAGAGAAGGAAATGT
Band lengths:
183-517
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]