DreINT0124563 @ danRer10
Intron Retention
Gene
ENSDARG00000079872 | rapgef4
Description
Rap guanine nucleotide exchange factor (GEF) 4 [Source:ZFIN;Acc:ZDB-GENE-070912-385]
Coordinates
chr9:2962164-2965369:-
Coord C1 exon
chr9:2965223-2965369
Coord A exon
chr9:2962262-2965222
Coord C2 exon
chr9:2962164-2962261
Length
2961 bp
Sequences
Splice sites
5' ss Seq
AGGGTCAGA
5' ss Score
3.16
3' ss Seq
GTTTGTGTGGCTGTGTTCAGGAT
3' ss Score
7.86
Exon sequences
Seq C1 exon
GGTGTGGTGTGTACTCTACATGAGGGTGATGATTTCGGGAAGCTGGCTCTGGTGAATGACGCTCCTCGGGCCGCCTCCATCGTGCTGAGAGAAGACTTCTGCCACTTCCTCAGGGTGGATAAAGAAGACTTCAACAGAATCCTCAGG
Seq A exon
GTCAGAACACAACGTCAGTCACAACTACACAAATACACTCAACAACAAAGACACACTACACTTAGCTGATGACTGATTATAAAGTTTGTTTGGCATTATGTCCCGGGAGAGCCCTAAGCTCATAAGATCCTCGAGCCCGGGGCTCCCTCACATTTGCAAGGCGAAAGGGGAGTTTGAGCTCAGGTAGATCTGGAGAACTTCCCTGCTGTAGTAGCTAATGAACAGATTGCTTGTAAACCGTGACATAGTTACATCCACAAATGCCAGTGAAAACCACACTATGGCAAATGGAAGCCCTATGTTAACAGTGTCCAGAAGCAACCTCGACTTCTTTGCGCTAATGAACAGATAGTGATTGCTCTTAAGAGATAACTAATTACTAGGATAATTGTACCAATTTGGATTAATCGATTATCTTAAGTTGCATGTTTTTGGACGGTGCAACCCAGCACTGGGAAACACCCATACAGAACCATTCACACACACACACTACGGCCAATTTAGTTTATTCAATTGGCCAACCCAAGCTCATTCTGAAAACGTAGCCCCGTGGACGTTTCTGGAGACCGCGATTTACCTGGCCGGAGGTACGTATGGCTGCATCTAGTTTTCCTGGTGCAACTAGTTTGTCCGGTTAACTTGTCGTGTTACGTCGGCAAAGCAAAGTCCCGGAGGAGGAGCCAGCTGCGGTGACGATCGGGTTCGAGTCCGTGGAACAGCGGTTCCAGAAATCAGGTAAGACAAAAAATAGAGTTCATAACGAGTTGAGCATGCGTTGGAATCCAAAAACTCGGTCAATATCAGACGTGGGCTTTTCTTTTTCTGGACGGCTTTTGAAAATCGTAGCTTGGGTTTAGGGAAGGAGGGTGGCTGGGTCGGCTCGATTGGCCCAGTCAATCGTTCAGTGATTCAGTCGGACAGACAGTCGCTCGACAGCGGCCGCCCACGGCTTTTTACGCGAGAACAGCGCGCGAGGCGTTCGAGACGCAAATAAGTGCACACAGCAGCCTCTCGCGGATTAGTGAAAACAAAAACTGCACAAATACGGATCTCTCTGGACGTATTTTGCGGTCTCCAGAAACGTCTGCAGGGCTACGTTTCCTGAATGAGCCTGGGTTGCCTATAGCGCATGATTGGACTATGGGGGAAACCGGAGCAAACCCACATGAAAACGGGGAGAACATGCAGGTGATAGGTGAATTGATGAACTAAATTGACCGTAGTGTATGAATGTCAATGAGTGTGTAGGGGTGTTTCCCAGTATTGGGTTGCAGCGGGAAGGGCAGCAGCTGTGTAAAAAATATGCTGAAATAGTTTGCAGTTAATTCTGCTGTGGCGACCCCTGATTAATAAAGAGACTAAGCTGAAGGAAAATTAATGAATGAAATGACCATAAAAAATTAACTAACAACTATAAAGTTAACCTTGTCTATTATTTAACCTTTTAGCACCTTAATATGATCATTTATTTAGATTACTGCATCAGTATAAAATAAATTGACAAAATATAACAAATTAACAATGCAAGTAAATCCTAATTGTTCTTTGTTGATTAATGTAATATTTTTACTACACTGTATACAGTGGTAATCTGCATAAACAAAGCAATCATTTAGATCCTGTCAGCATAGGCAGTAGTATCTTGATGCAGCCTTGATGTTGCAAGCTGAGATTGCATCACTCAGCGATGCAACCTCAGACTCAATGCACTCAATAGAGCGAGTGACGTCACTGTGATGGGTAGAGTTAGGGGTGGGGTTAGGTGAGCGCATTAAAAGGCATTGGATGCAGCTCAGATTGCACTGCACCGAGTCTGCAGCCAGACCCCTCTCGCTTTAGGTGACTATTTTTTAAAGTGCAGTGTGAACTAATGGAGACTGTGAACTGTTAAAGGGACAGTCCACCCAAAACGGAAAATTCAGTCCTCATTTACTGACCCCTTCACTCGTCACAAACATCTTTACATGTTCTTCTCTTTTTCTGTTGAACTCAAAAGAAAGATATTTTGAAGAAAGCTGGAAAGCTAGAAAGCATCTACTTTTTCCTACTTTGGAAGCTAATGGTTACAGGTTTCTAACATTCTTCAAAATAGCTTCCTTTGTGTTCAACAGAAATAAAAACAACATGAATTTTTTTTTGGTTAAACCATAAATTTTATGTAAATTAAAGAGTAGTAGCTATAAACAAACATAAAGCCATAAACAATTCAGACTAAATATGAAGGAAAGCCCTGCTGTAACATCAATTTGCGGCTCCCTCTGCTGGTCATGAAGCGTAATTACAACAACACATAACACGTGGCTGCATGTTTCAATGGATTACTTCTCCTCTCATGTGGCGCAGATGGAAATTGGCCCATGTATAAGCAGGAATTTCCTATTTACCCAAATTTTGCCTTAAACCTATGTAGAAACGGTTTTATATTGTCATGCAGCACAATTAATGCATACGGTTTGCAGTGTAAATGCAGATGGAGAGGCGTTCGTTTGATTCCATTCATAGCTGAACTGTAAGTGAGATTTCAGTTCTGTGCTGTTAAATTGCTGACATCTAACACTGACACAACAGTGCTAATCCACCGTCAGCTGAGCACATCACTTCTGTCCACTCTCATTACTTTCCTTTATGTAAACAGCCCACCAAATCTCATCCATATACTGCGATTCATGTATTCAAAACAAGGATTTTTCCTGTTTGTCCAGACTACTTAATTAAAATGAGCTGAAACAGCACAATTCTTGAGTGTTTTGGGACTTAATTGTTTTACGTTCAATCCACTTCAATTTGTTGTATTAACTTAATTGATTTGTGTTGGGACATTGAATGACTTCTGTGGTACCCTGCATTTTTACAGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTTGTGTGGCTGTGTTCAG
Seq C2 exon
GATGTGGAGGCAAACACTGTCCGTCTGAAGGAACATGAAGAGGACGTGCTGGTTTTGGAGAAAGCTAACAACAGGAGCTCCAGTTCTTCTCCTCTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079872:ENSDART00000144046:13
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=0.189
Domain overlap (PFAM):
C1:
PF0002724=cNMP_binding=FE(55.2=100)
A:
NA
C2:
PF0002724=cNMP_binding=PD(2.3=6.1)
Main Inclusion Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
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]