DreINT0124550 @ danRer10
Intron Retention
Gene
ENSDARG00000079291 | rapgef3
Description
Rap guanine nucleotide exchange factor (GEF) 3 [Source:ZFIN;Acc:ZDB-GENE-090312-38]
Coordinates
chr23:33510901-33514436:+
Coord C1 exon
chr23:33510901-33510955
Coord A exon
chr23:33510956-33514364
Coord C2 exon
chr23:33514365-33514436
Length
3409 bp
Sequences
Splice sites
5' ss Seq
ACGGTACGG
5' ss Score
9.91
3' ss Seq
GTTATTCTGTGCTTTTGCAGTGC
3' ss Score
8.61
Exon sequences
Seq C1 exon
CGCATGATTGCCAGAACAGTGAAGACAGTTCGGGATTGTCGAAGCCAACCTTACG
Seq A exon
GTACGGCTCCCTCTAGTGGTGTGGTTCACAGAACACCACAGTGTTTAAAAGGGATAGTTCATCCAAAAATGAAAACTGCCTCATTTACTCTCCCTCATGTGATTTTAAGGAGCGCCTATTTGCATTATAAAAGGTCATAGTTTTGGTTTTGGGGATCTCCAACAAAATTCTGATTTGCATGCAAGGTCAAAAAACACTTTGATTGTCTTATAATATGCATTTATTTTTACCTAGTTATCCCAATGACTACCATATGAATCATTCAGTGATTCATTTGTTCCCAAACCCCTCCTTTGCGTGAGGCTAATATGTGCTGATTGGTCCAATGACCCAGTCTGTTGTGATTGGTCGACTAAGTTCAGCGCGAAACAGAGAGAAACAACAACCACAGCTATGAAGTAGCACAGAGTATGTCAGAGCTCAGTGCAGGAAGCACCAGCATATTACTCTACTCTTAACCCTAACCCCAAGTAATAACAACGACACACATTCAGTATTAATCCACACAGTGGCAAAAGTTGAACTATTTAGAAAATTGACCGCGCCGAACAGCTGATGGTGGCCATAGCAAAGACATACGGCAGAGGATCACAAGTTCAGAAATGCATTTAAGTTGGTAAAGTAAGAAGCATGCATCACGTTTTCAACGCTGTTTTGTACACAATATGTGAACAGCTTCATTTAGATTTAGCCTGAGGCCCCGTTTACACTAATGCGTTTTAGTTTGAAAACGCATACGTTTTGCTATGGTTACGCCATCCGTCCACACTACGCCGGAGTTTTCGAGCGCCAAAAACAGAGGGTTAAGGAAACGCTGAAGAGGCCGTTTCCATTCTAAAACGCTGCTGTTCTGTCTCAGTGTGGATGGGGGAAAACAGAGACATCTGAAAACGAAGGCGGGGCTGCAGACATTCGCCTCTCTGATTGGAGCTTTTTCTTCAATATTAAGTAGCCTACACACAGTTCAGTCTCGCATCCTCTCCGTGTAAGTTCAGACTTCGCAAGTTTGATATGGAAAACAAACTCCCGGGTGTACTTTATAAGATCATTTACATCACCCTGGCTATGCTGTTTTACTGTCTTATCAAAAAATTTAAAACATGTGAGGAACTGCCTATTTTCATTTTGGATATTAGCAACTTAACAGACATCAAAAATGTTGAGGTGTCGTGTAGCTCCACATTTATATGAGCGTCATCTTCATGCATATTTATAACAAAACCGAGCCTATAACATCACTGCCTCTTTTCATTTTTATTGAAAATACGAAACACCCTTTCTATAACTGAATATCATTTTAAATAACCAATAATGGCCATTTTAAAATATAACGTACAATAAGTTTATACAATAGAGAAAATAACGGCAAGCCATCAGTCAATTGGGCAGAATCTGTGTTAGCGGTTACATTAATTAAGATATTAACCTAACTTATACTTGCGCTCATCCAAAACACGTTACCTGAGAACAAGTAGCCTAATAGATTCAAAAGACCAAAGTCGGGGAATATGTTGATGAACAGTTCGACGTGCCCTGCTCTCATATGTGCTCAAAGCATGCTGCAGCGCATGTCAGATTGTGTGTGTCTGTGTGAGTGTGTGGTCACGTGATGTGCGTTTTCACCGTTTTAATGTAGACGGAGAGTTGTTCAGAAACGCTGGGTGAAATGCTAGTGTGGACGCGGATCGTTTTCATTCTAAAACGCCGTTTTAAAACTAAAATGCACTAGTGTAAACGGGGCCTGAGAGATACAGTGCAAGCACTGATCTATAGTAGATAAGTGATTACAAGCCGTGCAGAGCGATTTCAATTTACAAGACAATAAATACATATTTTGACTACAGAAAACGAGGCAACAATTTTAATTACACTTACATGTTATGATCAGGAGGAAGAAGAAACTTGTCCATATAAACTTTAACAGTTACTGACTAAGTCTCTGCCAAAGTCTGACAAAGTTCCATACATCAGTCTTTGCTGATCCTTCCTTTAATAGCAAACGGCCGGCGACTCCCGCACTGCAGTGTAGGTTATTGTATCAATCTTTAGAAAATGACAGGAACAACCACAGCACACGGTTGCCTATACTGTGGTATTGTTGTCAAAATTAGCGTTTACCCTTTATTCCCACAGCAAAATCTCCATCTGTCAGTGATTGTTATCTCCGTGTCATGATCAATCCCATAATCCCCGGTACATATTTGCTGATGTACCGTATCAGCGTCAATGCTTTCAGGCAAAAGATCTAAACCCAACACGATTCATTTATTGGACTCTGAATTGACTATTTCGTTAAAGAATCAATAGTTTTAAACACGATGCACTTTCCGATTTAAACCTCTGGATATTTTCATTCACTTGGTGCTGTCCTAAAACACTGCATAGAAGGTGATTTTCAAAAACTCTTCAACCCTTAAGTTTCTTTCTTCTGCCAAACACAAAAGATGATGTTTTGAAGAAGGCTGGTTGCTGTGACCTATCAGACAAAAATGACTCGGGAAGTCAATGTGTCCCAGCAACTAGCAAATTTCAAAATATCTTATTTTGTGTTTAACTTAAGAAAAAAACTTAAATAGTTTTTCAACAAGTGAAGGGTGAGTAAATTGCAGTATTTTCATTATTGGGTGAACGATCCCTTTAACACTGTTGCATTTAAAGTTGTCCTACAATGAAAGCTGATAGCCTTAAATGGCTGTGTTTACACTGCAAATCTTAAAGAAGTTATAAAATAGAACATTTTATTGTTTTTGAACACAGAAGTAAATAGAATAGTATAATCCATGATAGTATAAATCATATTTTTTACTAATACTATACACTTCTGGCGCAAAAAACTTGGTTTATAAAATATAATACATTTATATGTGAAAATGCATTTCATGACCCCTAAGATCTGATCTCTTGACCGTATTTGATTTTTGTGGTATAATATTACGCGTACATGCAAGTCAGATATGAATCTCTGGCTCAGAACAGATTAAAAAAAATTTATGGACATACGTTTACACTTATGGAACATATTCATCTCTCTGATGGGAGTAAAACAAAATCTGATTGTTTTTGTGGAAGTGTAAATGCAGCCAATTTGAAAACCAAAAATAGAGATCGACTTGATTTTTGTTGCTTGAAAATGAATGAAATGGTTGTGGTTTGCTGTCATTTTGATTTCAATTAAGTGATGGTGTGTCGTGTGCTTGCTCTAACGTGTCATCTGAGAAGAGATAGATATTGGTGAAGGAGGGAAGAAATACTTAAGTGCATGCATTCATGGATTAATGATTTATTAGAAATGGTGTCAATTCATTAAAAAAAATAATAATAATAAGACGTCAAACTTCATTTCATGGTGACTTTAATTCATATCTCACTTATTCATATCTAAATTCAGAGTTATTCTGTGCTTTTGCAG
Seq C2 exon
TGCCTTCATCTCCGCAGAAAGGCTTGACGGAGAGAATGTTCTTGGATGCTCAAGCTATCCGAATATCAACAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079291:ENSDART00000142328:23
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.263 A=NA C2=0.120
Domain overlap (PFAM):
C1:
PF0061714=RasGEF=PD(0.5=5.3)
A:
NA
C2:
NO
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]