DreINT0124493 @ danRer10
Intron Retention
Gene
ENSDARG00000043593 | rapgef1a
Description
Rap guanine nucleotide exchange factor (GEF) 1a [Source:ZFIN;Acc:ZDB-GENE-081105-26]
Coordinates
chr8:11782011-11785496:-
Coord C1 exon
chr8:11785376-11785496
Coord A exon
chr8:11782192-11785375
Coord C2 exon
chr8:11782011-11782191
Length
3184 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
TTGACTGTTCTTATTTTCAGGAG
3' ss Score
9.92
Exon sequences
Seq C1 exon
TCCACCGGCTCTCCCTCCAAAGAAGCGTCAGTCGGCACCGTCTCCCACCAGGATTGCTGTGGTTGCGCCAATGAGTCGCACCACAAGTGGATCAAGTCTTCCCATTGGTATCTGTCGACAG
Seq A exon
GTGAGAATTTGATCTTGATGCTTCATCACTTCATCCTGCAGCTTATGAAATTCATGTAAGCCTTATGCTGAGTACAGACAGCAGGATTTTCAAAGTAGTTAAGTCACAGATGTTGTCACACCGCATGATTATCTGGGCCTTTCATGGGGTAGAAAAAGTACATATTTTCTCACCTGGGTTTAAAGGGAATAAGCAATTTCTCCTCAACTTTTTTTCTTTTTTGACATGGTTGTAATAATGCTCACAAGACACGTCAAACAGACACGTGTGCTGCTGCCAAATTTCCACTTGTTTTTCCTCCATTTCTTGGGTACAAATAAACTGAAAATGAGCCCTTTTAACTTCCCCCCCAACCTTCCCGCTGGCCTGAAGATACCCATACTAGTGGATGCTGCTCTCTCATTGGCTGTAGGTGATTGCCAATGTTATTTTCAATCAGAACACATTTTACACGGCATGATTTGAATCTTTGACAGCTCCAAATATTTAGCACGCCAAATATCAGACAGGTGTCAGCAACTCATCGCGATTTTCTCAGATCGCGTCTTTGGTAGTTTACACTGTGTGATTGTTACTCACATGAACAAGCACTTATTTGCTTGTAATTTCAGGCATTTGTGATTTTTCAAAACCTGTCGGCGAGTGAAAATTGGGGCTAAAATCCTGCAGTCTGAATTCTGCATTAAATGACTAATTTATAGTCCCTTTTAAAAGTGTTTTTTAATAACCATTCGTAATTCATCTGAAGTGTATTTAAAGGGCCATGACACCCCCCACTTTCGGTTAAAGTCTACTTCAGATTTTTTTCAAAAGATGCATGATTAATGGGCATGGAGCTCCGCGAGCATCGGGCAGGAGTGGGCGTGGCCACCAGGGGAGAACGTGAGCGAACGAAGGTAGCTCACAAAATCAGTCAAACCGTGAGGAGACGCATGAGTTTATAGTTTACAAAGTTAAAATGCAAAGAAATGAACAGTAATTTAATGCCCTGCTACATTTGTTATTCGTAATTTCATATACACATAACCACAATTTATATCATTATAAAGATAAGTGTGTTCATGTAAACCCTATAAATGAGGATTCTCCCTCAAGCCCCGTATCCAGCAGACTCAGTGCAGCAGGTCTCCTGACCTGTCTATTTTAACCGTTAGCCCTGCTGGTAATCTGGAGAATTTAGGCAAACACAGCAGCACAGTGATGTGTCTGAATGTGAACGAACTCCTGATGAAAGACAGTGTCCGCCATTCTCTAATTCTCGTGCTGCTCTCCCGACAAAAATGCTAGCAGCACACACACAGCTTTGCTGTATGATCGGCCCTGACAAGATCGCGGGGGAAAACATGGAACAAACCCCGTGGATCATGGAAACAAACGCATATGAGCCTTCATAACAGGTAAATACTGTGTGCCCGTGCCGTGGGTCCGTGACGTGTCTAACAGCTCGGGCTTGACTCTGGCATGTCTGGCAGGTCTCATGAATAATTAAGCAGCCGGCTCTTCTCATAGGATAAGAAAACTCCGCTATGAATAATAATGAGAAACCAACGCGTCATTATTGCACTTGCAGTACTGCGCTATGTCGCCGATTTTGATCCCACCCCAAAAATCATTTTAAACCCGGAAGCTGAAATTAGCTTACAAATGCTCAAAATTATCCAGTTTTCCCCACAATTAAAGCTGACAGGTGCTAACATTGTCTTAACTGATGCTCAACACACACACATCTGTTAATATAAAAAAAAAGTTCTCCAGGGTGTCCTGAACCTTTAAATAAGAGGTCATTGTTTAAGGTCATGTTTGTGTTATTTCTTGAAATTGCCATTGGGGTCTAAAACACTACATTTTTAATCATTATAAAAAATGTATATCGGCTTGCTAAGTGTGACGTCACACAAAAGGGCTTCCGGGTCCAAGCGCTATATTAAACTGAATAGGAAGACTTATCAAATACTAATAATAAACGTTTACAAAGCGATGCATTACTTTCGAAAATCATGATCGCAATATATATGCATGCCTAATATTAGATGGCCAGAAAGTGAATCGTTTTTTATAAATTGTTAAAATTTTGGTATTTTCGATGAAGCAAGCCCAGAGACTGTTGTGTACACCATGATTTTATATATAATTCGCTTTCAAGAGTTCCCACTTAGATATGCTTGGCATTTATAGCAGGTTTGGCATGCTGTCCCGGGAGAGAACTCTGAGCTCGGAGATATTTGAGCCCAGGGCTCCCGCCCGGTCTAGAAGCATATCAGGAAATCCGAGATCAGGTAGGTCTCGATCGCTCCCTCTTTAGAAGGGGAGAAAAAGGAGGAGATGGGGTGGAAGGGGGGATTCTTCCAAAACGAAGATACAGCAATAAGGAGAAAGTGATCCATTTATATTAAGCTAGGATCATTCTGATTGGATTATTACTGATTATGGATGAGTGGCCAGCGGTGCACAATCATATCACATGCTCCTCTCGAAATTAGTTTATGAAACTTCACTTATGTGTGATATGACTAAAAAGTGGTCATAAATGAGCATTTTCTCAATTCAAAAGAGTAGCGACTTAGACACGGAAACCGTGTTCCATACGTCACCGTTGTGTCACAATTTAACATTGTATTGTACATTGTATAGTATTATATTACTATAAAAGTATATATAAAACATCCGTTCCTGTCTTAACACAATTTTGAAAAACATTATTGATCAACTTTAAACTACTAAATTACTATTACATATAATTTTCTTTTTTGAATCTTGTATTATATATATATTTTTTTAAATTTTCTTCATATTTACATTTTGTTCTAAATCACAAATTAGGGTTTTAAACCTCATTAGTACCCGTTTTGGGTAAGAAGATTGTGAAACTGAAAATGACTCTGAACTGCTATGACTCAAGGTCTTACATTCTTTTTCCCATGAGCTGTTTTTAAGTAACCATTCCGAATTCATCAGAAATCTGATGTTTTATAAGGTCACTCAGTTATCAGTAACTGGGACAATTTTTAAAAGGATACTGTATTTCTTACTAATCCTCCCATTTTCCATGGAGCATAAAAATGTTTTGAAGGAAATGTGAACTGTTTTTACCAATAAAATGAAAGTCATTGGGTCCAAAGCAACATGAGACTCCCCTTTATTTAATGTTTGATAGTCCCTCAAGGTTGACTGTTCTTATTTTCAG
Seq C2 exon
GAGTATGAAGCAGATGCCTTACAAAGGCGTTTTTCTGGAGGCAGTCACTCATATGGAGGAGAATCGCCACGACTGTCCCCATGTGGCAGCATCGGCATATTGAGCAAGTCAGATGAACAGCTGTCCTCTCTGGATCAGGACAGTGGACAGTGCTCTCGTAACACCAGCTGTGAGACTCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000043593:ENSDART00000139947:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.951 A=NA C2=0.885
Domain overlap (PFAM):
C1:
NO
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]