DreINT0124592 @ danRer10
Intron Retention
Gene
ENSDARG00000075271 | rapgef5a
Description
Rap guanine nucleotide exchange factor (GEF) 5a [Source:ZFIN;Acc:ZDB-GENE-030131-7681]
Coordinates
chr19:2856406-2857318:+
Coord C1 exon
chr19:2856406-2856493
Coord A exon
chr19:2856494-2857253
Coord C2 exon
chr19:2857254-2857318
Length
760 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAAC
5' ss Score
5.54
3' ss Seq
TGATTTCTGCTGTTTTTCAGACA
3' ss Score
8.8
Exon sequences
Seq C1 exon
GATCCATCCATGAACCACAAAGCCTACAGAGACGCTTTCAAGAAAATGAAGCCGCCCAAAATACCCTTCATGCCGCTGCTGCTCAAAG
Seq A exon
GTGAACACACACTTCCTGTCACCTGACCATATAAAGGGAATTATTTGGGTTACTGAAGTAAAATCTCCATTTTCTTTGTAAGGAAGTAACTGATAAACCTTTGAGGATGCTCATGTCGAGAGCTCTATTTATGTAATTTGTTTATATTTATTTGACTAATTATTATTGTTGTTGTTGTTTTAGTAACACTTTAAAATAATCATCCATTATGTATTCACTAACATGAACAAACTATTAGTAATATGTTTATTACGGTATTTATTCATCTTTGTTATGGTTAGTTGATGTTATTTAGGTTAAATAATGTTAGTTCATGTTAACTCAGTGCATTAATTAATGTTAACAAGCACAACTTTGTATTTTAATAATGCATTAGTTAATGTTGAACTACAATTATTAAATACTTTACAAGATTATTGATACTTAATTAGTAAATATATTAACTAATATACCATTATTAACTATTAAATATATACCATTACCATTAAAATATATACCATTAAAAACTACATTACCCATAATGCTGTGCAGAAAATTTCACAAATGAGAGTTGGGCAAAGTGGCAAAATGTTTTAAGCGCAAATTAACATGAAATATATTGCATCAATTTTAATGAATAATTTAAACCTAAATCCACTGTTTTGAATCTTGTTCTCTAATTTTATTACTTTTCTGCTTGAAAAAAGGTTATGTTGTGAATTTCTTGGTGGGTTTTGGTCTTTAAATTTAAATAAAAAAAGTGATTTCTGCTGTTTTTCAG
Seq C2 exon
ACATCACCTTCATCCACGAGGGGAACAAAACATTTCACGATAACCTGGTGAACTTTGAGAAGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000075271:ENSDART00000112414:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.033 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0061714=RasGEF=FE(15.7=100)
A:
NA
C2:
PF0061714=RasGEF=FE(11.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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]