DreINT0123827 @ danRer10
Intron Retention
Gene
ENSDARG00000015460 | racgap1
Description
Rac GTPase activating protein 1 [Source:ZFIN;Acc:ZDB-GENE-030131-1917]
Coordinates
chr23:33836495-33837022:-
Coord C1 exon
chr23:33836917-33837022
Coord A exon
chr23:33836628-33836916
Coord C2 exon
chr23:33836495-33836627
Length
289 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAT
5' ss Score
8.88
3' ss Seq
TTTCTTTCTTTCATCATCAGGGT
3' ss Score
10.25
Exon sequences
Seq C1 exon
AGCTGTCAGATGATGACAACAGCATTGCCTTGATGTATCAGAACATCAGTGATCTTCCACAGCCCCACAGAGACACTCTGGCCTTCCTCATCATCCATCTACAAAG
Seq A exon
GTAAATAGCAAACATTCTCTGATTTTACTCTCTGCTTTTTATTTTAATGCTAATTAGTTGTGAAATTCAAACGTTTCTTTCGAGATGATAAATGTATTTGTGAAATATTAAAGGTTTAAAGCAGTTGTGGTAGCAGTTTAACTAATAGGCCCTTTTAACATGCTGGAGATGTTTTTTTCCTAATTTTTTTCAGTTTAGTAACTAATATTACTGCTTAATTTAGGGAAAACAGTCCTCTCAAAAAGCAATTACTGTTCTTACTTTTTCTTTTTCTTTCTTTCATCATCAG
Seq C2 exon
GGTGGCCCAAAGCCCCGCTACAAAGATGGACATCACCAATCTGGCTCGTGTATTTGGACCCACAATTGTAGGCCATGCCGTTTCTAACCCAGAACCAATGACCATCCTACAGGACACAAAACGACAACCGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000015460:ENSDART00000027959:13
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=0.267
Domain overlap (PFAM):
C1:
PF0062022=RhoGAP=FE(23.2=100)
A:
NA
C2:
PF0062022=RhoGAP=PD(20.5=68.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGATGACAACAGCATTGCCTTG
R:
CTCGGTTGTCGTTTTGTGTCC
Band lengths:
228-517
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]