DreINT0124624 @ danRer10
Intron Retention
Gene
ENSDARG00000079912 | rapgefl1
Description
Rap guanine nucleotide exchange factor (GEF)-like 1 [Source:ZFIN;Acc:ZDB-GENE-131121-404]
Coordinates
chr3:23217747-23218610:-
Coord C1 exon
chr3:23218520-23218610
Coord A exon
chr3:23217798-23218519
Coord C2 exon
chr3:23217747-23217797
Length
722 bp
Sequences
Splice sites
5' ss Seq
GAAGTGAGT
5' ss Score
7.97
3' ss Seq
TGTTTGTGTGCTTTTGTCAGGGT
3' ss Score
7.29
Exon sequences
Seq C1 exon
ATGTAAGCAGCAGCAGGATCTGCTGTCGTTTCTGGCTCTGGTTCTGGGTCTGGATAACCCTGCTGTGAGCCGCCTGCGTCTGACCTGGGAA
Seq A exon
GTGAGTGCTTTTGTTTGTCAATCTTTCAGTCTCTCGCACAGCTCTATTCCTGGAAGAAGACTATTAGCAGTCGTCATGGCAACCCAGCCAAATTTGCTTGTGCTGTAGGAAATATTTCCACATCCACTTGAAATCAAAGTGCAATTTATCGGGGGGAGTGTTAGCATCTATATGTTAGTCTTAATTCAGTGTTCATTGGGGTGAATTGTGCGTTAACTGAGCACAACATGGAGCAGATGAAATGTGGCATGGACCACAAAAGGTTTCGAACCCATCCCATCTGTAAGACACACCGAATGCTGTATTTTAAAGTGGAGAAACAGTTAGACAGACTCAGCATTTTAGACGGTGGCTGTCATGAGTCAGATGTGCTTTAGCTCGAGTCTGACTGACTAATTAAACTCTATTGGCTGACTGAATCTAACGAAACTCTATTGGCTGCTTTTAAAAAGAGGAGGAGCTACTTTGTATGCCACCCTGTTTTCTTGTTTCAGTTTATATGACATCACATTAAACAAAGCTGCACGTTTCAAGGCACTTCAAGGAACCATAACCTATTAGATTATACTTTTCTTTTTTCTTTTTATTTAAAACAAACCCTCATTATTTGTGGGTTTTATTGCGTATGTGCTGTTTTACATCCTCCTTATTCTTGACACAGCTTTATTTGGCATGTGAAGTGTGTCAGTAACTGATTGTGTGTGTTTGTGTGCTTTTGTCAG
Seq C2 exon
GGTTTGCCAGGAAAGTTCCGGAAGCAGTTTCAGCAGTTTGAGAGCATTGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079912:ENSDART00000155658:10
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:
PF0061714=RasGEF=FE(16.2=100)
A:
NA
C2:
PF0061714=RasGEF=FE(8.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]