DreINT0124561 @ danRer10
Intron Retention
Gene
ENSDARG00000079872 | rapgef4
Description
Rap guanine nucleotide exchange factor (GEF) 4 [Source:ZFIN;Acc:ZDB-GENE-070912-385]
Coordinates
chr9:2967597-2969755:-
Coord C1 exon
chr9:2969695-2969755
Coord A exon
chr9:2967674-2969694
Coord C2 exon
chr9:2967597-2967673
Length
2021 bp
Sequences
Splice sites
5' ss Seq
TGTGTAAGT
5' ss Score
7.65
3' ss Seq
ATGGATGTGTTGTGCTGCAGTGT
3' ss Score
5.34
Exon sequences
Seq C1 exon
GTGAAGAGGGAACTCGCTGGTGTTTTAATATTTGAGTCGCATGCGAAAGCAGGCACAGTGT
Seq A exon
GTAAGTGGCAAAATTATTATTCCATGAATTTCGGATGTTAAAGAAGAAGTGAAGCCGTTCAGGACTGAACAGATTTATACAACATAGACCCATTCTGAAAGCGTAACCCTATATGCATTTCTGGAGATTGCAAATTATGTAGCCAAAAGTAAGTATTGCTGCATTTCATCTTTAAAACGAACACTATAGGGTGGTATGACGCCGTTCCTTGAGCTCGGTGGATCTCAGAACTCCCCGGCTGCGGTAGCCAAGGGAACAAAAGGGGTCAGACAAATGCTTGATTGTTATGCATGTTGAATGTCTTTGGATGGTGGGAGGAAACTGGAGAACCCGGGGAAAACCCACACGGACACGGGGAGAATATACAATCTCCTCACAGAAACGCCCACCGGCCTGGTGGGACCAGGGCCGGCAGTGTTCTTGCTGTGGGGCTCACAGTGCTAACCACTGGGCCGCCGTGCCGCCCGATCAGAGGTACAGGAGGAGAATAGGGGAGAAAGGGGGGTTTCTTCCAAACGAAGATAAAATGGACTGAAAACTGTGGTTATTCATAGTAGCTTAGGGCTCGTATGATTGGAAGATAGTGATTAGCTAATACGAGACCAGCCGTGATAAATCATAAGCACGTGATCCTCTCGAAATTAGTTTATGAATAAACCTCACTTAGGGAAGTATGTGATTGGGTAAATCAGTGCTTTTGAAAACACTGTCAGTAGGAATTTAGTGAAAGAAGAGGGTGGGTCAGTCAGTCAGTCGACAGCGGCCTCTTGTGGATTTACATGAGAACAGCAGGCACGAATGGCACTAGTAAGAGAAATTTGCAACCCAAGCTCATTCTGGAAATGTAGCACCGCGGACGTTTCTGGAGACCGCGATTTACATGGCCAGAGGTACGTACGGCCGCGTTTAGTTTTTTTAGAGCGAACGCTGCGGGGCGGTGTGGTGCCATTCCGCTCCTCCTCTTCGCGCTCGACGGCCGACGGCTCGCCTCCGAGTGGAGGGCTTTCCCGATGCAACCGGTTTGTCCGCTTAGCTCACAGCGTTACGTTGGCGGAGCAGAGGCCCCAGAGGAGGAGGAGCTGGCCTCAGGGACGACGACTGGGATCGAGTCCGGGCAACAGCGGTTCTAGAAATCAGGTAAGATGAAAAACAGAATCCGAAAAATAAGGGCAAGAACGTGGCGGGATCCGAAAACGCGGTTGAAATCGAAGACGAGGGCTTTTGCTTTTTTTTTTTTTTCTTGACGGCTTTTGCAAACCGTCGCTTGGGTTTAGGGAAGGAGGAGTAGGAGGAGGGAGGCCGGGTCGGCCGATCCGGCGGCTTTTCGCGCGAGAACAGCTCGGGCGCGAACGGCACGCGCTCCCGAGAGGCGCCCGAGACGCGAAAAAGCGCGCACTACGGCCTCTCGCGGATCCGCGAAAACAAAAACCGCTCGAATACGTACTTCCTGGGACGTATCTCGCGGTCCGCAGAAACGTCCGCGGGGCTACGTTTCCACAATGAGCCCGGGTTGGAAATTTGAGATCTCAAAGAGCATACACAGCGGCCTCTGGTGGATTTGTAAAAACAAAAACTGAAAAAATTTAGCCCCTGCGACGTATTTGGCACTCTCCAGAAGTGTATACAGGGGTACATAATAGGAATGATCCTGGATTGTATTTAAATGACTGCTGTATGAAGATATGTGCGATTGTACTCGAGATTAAACTCAAGCTTAATAACACACAGGCACACACAGACTATGACAAACATGCACTTACACACACAAACACACACTCAGACATACTCTAACATACATATAGGCACTTCCACACACTAACACTCAAGCACACACACTTCCACACAAACACAAACATGCACTCGCATACACAAACAACTTGCGTAAGAGCGTAAACCTGTTGTAACCTTAATTACGCACACAGTTTACTCACGTTTAAGAAAAGTCAATGAATGTCATTATTTCCAGTATGCTAATAAGAGGTGTGTGATGTTGGAGTGATTATGGATGTGTTGTGCTGCAG
Seq C2 exon
TGTTCAATCAGGGTGAAGAAGGGACGTCCTGGTACATCATCCTGAAGGGCTCCGTCAATGTGGTCATCTATGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079872:ENSDART00000144046:11
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:
PF0002724=cNMP_binding=PU(10.3=42.9)
A:
NA
C2:
PF0002724=cNMP_binding=FE(28.7=100)
Main Inclusion Isoform:
NA
Other Inclusion 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]