DreINT0124597 @ danRer10
Intron Retention
Gene
ENSDARG00000075271 | rapgef5a
Description
Rap guanine nucleotide exchange factor (GEF) 5a [Source:ZFIN;Acc:ZDB-GENE-030131-7681]
Coordinates
chr19:2839073-2843440:+
Coord C1 exon
chr19:2839073-2839196
Coord A exon
chr19:2839197-2843348
Coord C2 exon
chr19:2843349-2843440
Length
4152 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGT
5' ss Score
8.68
3' ss Seq
TAACTCTTCTCACTCTGCAGACG
3' ss Score
9.32
Exon sequences
Seq C1 exon
GGGAAAGGAGGAGGGGAATGAGGCCCTCTACAGGAAGAGAAAAGTACTGCACCTCGTGTCTCAGTGGAGCTCGCTATACAAGGACTTCCTGCGCGAGGAGGAAAACGTCAAACTCTTCATGAAG
Seq A exon
GTCAGTACATTGCACAGACACTGTGTTAAACGTGTGGAATCTGTATTATAGAGGTTTTTTATTTAACTTCCTAATAACAAACAGGCATTTCGACTTCCTTTATTAAACATATATAACATTATATCCAAGCAACATATCATAAACAAAATAATGCAGAACAATAATCATAACATAAATAAAACATTAAATCGTATGAATGCAAATGAAAATACATTCAGGGTGGTCAATCCAAATAAGCTGACAGAAGTTTAGAAAGCTTTAAGGCTCGTCTTTGATATTATAGATGTAATTTGAGCAGTCAAGTGTCAGTTTTATTGTGTTGTTTTTAATATTGTTTTTTTTAGAACTGATATAAGTGTAATGGTGACAGTTGAATCAAATAAAAGACATGAAAAACAAACACTTGTATTGCAAAATATTAATTTATTAATATTGAAAATTAATATTTATATTATATTTATATTAATTAATATGTATATTAATATGAATTTAATTGAATTTAACATGAATTTATATATATATATATATATATATGTATATATATATGTATGTGTGTGTGTGTGTATATACACACACACACACACACACACACACACATGTTTAGGGATGTCCCGATCAGGTTTTTTCCACCCCTCGAGTTCAAGTCATTTGATTTTGAGTATTTTTTATTTTATTCACCTTATTTTAAAAATCCACATCTCTCTTAACAAACAGAGCACTTCTGTGAGGCGGCTTGAACAATCAAGTAACAAATAACATCAGTTCTTCACTTCTGAACTTTAGCGCAACAGTAAATTTAATATAAAACAAATAAAATACCCGGTAGGCAATCCCAAGTTCATAAATCTCACAGTTTGCTATGGTAATACTGTCATCATCAACTTTATAATACCTCCAGACTGCAAATATTCTCGCGCTTTCCGCTTCAAGCTGCTTCCATGTTCTACTTTGCCGGCATTTAACTAATAGAGTCTCAGCAGCAAAGTGATGTCATGCCACACGCGTTTTTTACAGTATTTTATTCAGTTCATATACAATTACTATATATATATACATTTTCGTTCAAGAACGTAAATGAAATTTCTACCAGCAATTTCCACCAAACATTTACGACTATTCAGTTAACATTTCTAGAATTTTTTTCAGAATTTTAAATGTTTTGATAAATGTAATATTTACAGTGTTTATATATTATTTATACATTAGACCATTTCCACTGTATTTTACACTATTTATGTACTTACAGTAGAAATACTTCATCTAATTTGTAGTATTTTAAGTATTTCCATTAATTTTGGAATTTTATATATTTGTTTAGGACTAATAGTAAAATTTCAAGCAGTATTAAATTATATATATATATATATATATATATTAAAATACATTAGTAAATTATATTTATTAGTAAACATTTTCTCAAAAGTATTACAATTATTATTTTATTAGTAATACATTTTTTCAGACTTTTGCACAATTATTATTCAAAAAAATGTTTTCATTAATATGTTAGACTTTTTCTTTCCTCCTTTTTCTAATTTGCTCATCTATAATTTTGAGAATATTCAAAAAAATAAGGGCGACACGGTGGCTCAGTAGTTAGCACTTTCACCTCACAGCAAGAAGGTCGCTGGCTCGTTCTGGTTTCCTACAGCTGCTCTGGTTTCAGGCGCTATAGGTGAATTGATTAGCTAAATTGGCCATAGTGTATGAGTGTGTGTGAATGTGAAAGTGTATGGGTGTTTCCCAGTGCTGGGTTGCAGCTGGAAGGGCATCCTCTGTGTAAAACAAATGCTGGAATAGTTGACGGTTCATTCCGCAGTGGCGACCCCAGATTAGTAAAGGGACTAAGCCAAAAGGAGAATGACTAGAATGAATGGCTGAGAAAAAAATAGCCCCGCCCACAGTGAAATCTGATTGGCTCACATTCCTGCTCTGCATAGCTGCATATCGACCTGAAATGTGTTCTGATTGGCTTTGAAGTGCGTTCTAAATCTGTGCGTGTAAGTCCGTGTGTGTGTGTTAGGCTGGTAACACCCAACTCGTCCTCTGTGTGTGTGTGTGTGTGTGTGCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTTGCTGGTTCTGTGTAAGAGTGTTAGTTTAGCACCAGTGACTCACGGTTCTCCTCAGGGATCTTCATCCTCATGTCTGGACTTGAGTTGCTATAATGGTTTCCCTCAGCTTCACTCCAGAGATCCTCTTCTCTCCCGTCTGCTCGCTGCTGAAGGCCACATGCTGATGAAATATTCACAAAACACTTTCAAGAGTCATTAAAAGCATCAGCCATGTGTTAACGGGGTGTGCTAGATCTATGAGTGTGTGTGGAGTTGTGGTTTTAGCGTAGCCTGAAGTGCTAAAATGCTAATAATAATTGCTGAATTCAAGCTAACGCTAACTTTACTGTTTGTGTTCTTGTATATATTTTGTATTTAGGCGATTTTTTATGAGTATGTAGATGTTTTTGCATCTGTATGTCACTGTTTTACCTTGTGGAGCCACACACACACACACACACACACACACACACACACACAGATCAGAAAAGCACATGTTGTTCCTGTCTGTCTTTGTCTCGACTCTTAAGCGTGTTTCACTGCAGTGACGAGGCTGTTTGACGCTCACCGTGTACATCATGCAGTGTTTCCCAGGTGATAGTTGCCTGGTAACAGACAGATTTGTGTGTAACTGGCTCAATAAGACACACACACACACACACACACACACACTTACTGAGGAGGACAAGTTGTGTTACTAGCTCAACACACACACATACATGCATGCAGGACAAATTGTGTGTTACCAACTCAATACATACACACACACGTACACACTTACTGAGGAGGACAAGTTGTGTTACTAGCTCAACATACACACACACACACACACACACACATATACGCACTTACTGAGGAGGAAGAGTTTTGGTACCAGCTCAACGCACACACACACACACATACACACTGAAGAGGATGAGTTGTGTTACTAGCTGAACACACACACACACACACACACACACACACACACACATATACACATTGAGGAGGACGAGTTGTGTTACTAGCTGAACACACACACACACACACACACACACACACACACACACACACATATACACACTGAGGAGGACGAGTTGTGTTACTAGCTGAACACACACACACACACACACACACACACACTGAGGAGGACAGGTTGTGTTACTAGCTGAACACACACACACACACAGACATACATATACACACTGAGGAGGACAGGTTGTGTTACTAGCTGAACACACACACACACACACACACACACACACATATACACACTGAGGAGGACAGGTTGTGTTACTAGCTGAACACACACACACACACATATACACACTGAGGAGGACGAGTTGTGTTACTAGCTGAACACACACACAGACACACAGACACACATATACACACTGAGGAGGACAGGTTGTGTTACTAGCTGAACACACACACACACAGACACACATATACACACTGAGGAGGACGAATTGTGTTATTAGCTCAACAAACACAAACACAATCACAAACATACAGGACTAGTTGTATGTTACCAGCTCAACACACATATACACAAACACGATCACAGAGGACAAGTTGTGTGTTACTGACTCAATAACATATTTAAAGTGTGTAATGGCTCAGTAACACACTCAAGAGTCTGAGCCGTGTGTTACCAGCTTTAACACACACATACACTCACACATTTAACCAACAAACAGAACAATTTCTTACATTTCATCTAGAATTGTTGCTGGGTTTTGCATCTGTAGTGTTTTATTAATCAGTGTATCATCACCGTAAGCATTTCTGCCATCAAACTCCGACTGTTGACAAGTCATCGGTCAGTTATGATGATCATGAACTGCCAAATATCTGCTCAGTGATCAACAACTACATTTATTAACTCTTCTCACTCTGCAG
Seq C2 exon
ACGTTGTATCGATACGTGCTGGAAGACGTTTATGAGTTTCCCACACTGGAGAAAGACCTGAAGGAGTTCCAGAAACTTCTGCGCCGGAGACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000075271:ENSDART00000112414:4
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:
PF0061815=RasGEF_N=FE(33.6=100)
A:
NA
C2:
PF0061815=RasGEF_N=PD(9.8=38.7)
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]