DreINT0123837 @ danRer10
Intron Retention
Gene
ENSDARG00000015460 | racgap1
Description
Rac GTPase activating protein 1 [Source:ZFIN;Acc:ZDB-GENE-030131-1917]
Coordinates
chr23:33842308-33843039:-
Coord C1 exon
chr23:33842922-33843039
Coord A exon
chr23:33842505-33842921
Coord C2 exon
chr23:33842308-33842504
Length
417 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
3' ss Seq
CCTTTGCATTTCTGTTCAAGTAT
3' ss Score
5.12
Exon sequences
Seq C1 exon
GGAAATGAGTCTCTGGTGGCTAAAACCACCGTGACTGTGCCTGCTGATGGCGGACCCATTGAGGCCGTCACCACAGTGGAGGCTGTTCCCTACTGGACCAGGAGCCGCCGGAAGACTG
Seq A exon
GTAAGATTATTTCCCTAAATGTAATAATGCCCTTCTTGAGGGAGCACAGTGCTGAGCAAGAGAATATTTGCATGAGTCATTGATTGTGCGATTTTGTTATTGACGGAATAATAATGCACAAGCTGCTGTATCATGAATAAGCTCCGCAGTGAGTCATGATATGTGGTTGCAGAATCATAAATATGCACTCTTTTTATCGAACCGGGTCAAAGATTAATTTTTAAAATAATTTAATGTGTGCTTTGCAGGACTCTGGGGTGTTTTAAATTGAACCTCGTTGAGTCTCCAGCCTCGGGCTTTTTATTTATTTATGTTTGTTTAACTTTATTTTTTATTTTTTTTATTACAGGGCTGTTTTGTGTAGGCTTTTTTTTCTGGTCGTTTCTCTCACTCCAAGCCTTTGCATTTCTGTTCAAG
Seq C2 exon
TATTCTGCAGTAGTGAGCAGTGTATCTCTCTGAATTATTCTTCAGCTGCTGTGGAGTGGGACACCGTTGACACAGATTCTGTTCAGTCTATGGATGTGTTCAAGCAGCCCAGTCTGCCCAATGCAGAGAACAGGGCAGAGCCCAGCACTCCACAGGGCAACGGAGGTGTCCGTCTGCATGAGTTTATCTCCAAAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000015460:ENSDART00000027959:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.500 A=NA C2=0.470
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0013017=C1_1=PU(11.5=11.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAAATGAGTCTCTGGTGGCT
R:
TGGAGATAAACTCATGCAGACGG
Band lengths:
310-727
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]