GgaINT0124541 @ galGal4
Intron Retention
Gene
ENSGALG00000003712 | RAPGEF1
Description
Rap guanine nucleotide exchange factor (GEF) 1 [Source:HGNC Symbol;Acc:HGNC:4568]
Coordinates
chr17:6253988-6257115:-
Coord C1 exon
chr17:6256834-6257115
Coord A exon
chr17:6254077-6256833
Coord C2 exon
chr17:6253988-6254076
Length
2757 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGA
5' ss Score
8.51
3' ss Seq
AAACTTCCTTCTCTTTGCAGGAA
3' ss Score
11.5
Exon sequences
Seq C1 exon
TACAAGTCTGTGTTTAGGTCCTACTCGCAGGACTTTGTGCCTCACAACCAGGTCTCCGTACCTCCTTTCCTGTCTTCTACCTCCTCCTCCTGCTCCACCGCGCCCTTTCCGCCCGTCCACCCGTCTCCGAGCTCTGACCTCGCAGTGCCAGCCACGGCCAGCCCGTCTCCCAGCACTGGGGATGTGCCAAACTCCTCTTCGCAGGAGAGCAGCTTTAACGGGAGTGCTCCTGTCTGCCTTCCTTCTGAAACCTCTCTCACTGATTCTCTGCAGACGCCTTCG
Seq A exon
GTGAGACTATCCAAAGAGGTGATCGTGTGCACCTTAACGCAAGGCCGGGCTTGTTTTTGCTTTAAAGAAATGTCACTTGTGTTAATACTTGCGATTTGGTGTGAATGCGGAGAGGTGGTTCTGTCCAAAAGCCACGGCTATAAATCTGAGCAACCCCACAGGTTTGAGAGGTTGGAAACGTAAAATGTCAAATGCTGGTGAAGGGGAGAGGAAGAGAAGTTGCTGCTGCTTCCTGCAATTGTGCTACAGATCAGAGGAAGGTAAAGGAGTGCTTGGTGAGGTTGCTTCCCAGCAGTGCTTCACATCCTGCAGGAGCTGCATCCCTGCTCTCCTGCTCCCCGAGCCCCTGGTGAGCCCTGTGAGCAGTGGGTTCGCTCAGCTCCACGCTCCTTATGTAAGCCATTACTTTCTGTGGGCTTCTGCTGTCCCCAGCTGCCGGCGCTGGTGGCGCTCAGTGCAGAGCGTAACGCAGTGCTGGAGCTGGGCTGAAAGCTGTTCCCACACTGACCAGCTCAGGGTCCCTGGTTGGTTTAGCACACCAGTAGGCAGCTTACTTCTTTAAGTACCTCATTTACGAGGCAGTTTCTCGTCTGTGTGTTGCAAAACCGAGAGTTGATGGGATCAGAGCCTCAACTCTGCCTCTTCACAATACTTAGAGGAGGGACGTACGCCACAGAAATCAGGTTTTCACCCTTTAGACCTGACCTCGCTGTTGCATCTTCGTTGCCTCGGGTGTTTGTAAGCACCCAGCAGCCCTCAAGTCTGGCTCAGCCTGGCTCCCCGGGGCTGGCATTGGCAGAATGGCGCTTGTGCTCAGGCTCTGAACGCTTAACAGCTGCACGCTGGAAGTCCTCACTGTGCACCCACACAGCTCCCGTGGCAGCTCTCGCTACGCAGTGCCTGCTGCTGTCCTACTGCAGCTCAGGGCCTTCAGGACGGTCCTTGGGAACTCCGGTATGGCCACCTTTGGGAGCGTGCAGCTGGAGGATGGGCTCCCACCTCGGTGACGGCACCGCAGGGCACAAATGCTTGCTACCAGCCAACGCTGCCGAGGGACACCGTCACGTATTTCCTTTCATCCTGTCTCCCCTAGAGTGAAAACGCCAGTGAGGAGGCTGGTGAGGGTGAATACGTCAATCTGTATTCCTCTGGCCAGAGCAACGGGGAACTCCCTCATTCTGGAGGAGTAAGTAACCGGGAGAGGCCACGCACTGGGAAGGGGCTGCCTGGTGCATGCTGAGCTCACACTGTGGCCCGGCCCCTGTGCACCCCGGGGTGCCCGGTCCCCTCGCTGGTGGTCCCTTTGCTTGCCCTCTCCTGGCTTGCAGGCTTTGGTGGCCTCCTGTTCTGCTGCTGAGAGCCCCAGCAGGACGGAGGGATGGCTTTGCCTTCCTCCTGGCCCGTTTGTGCTTTGCTGTTTGTCTGGAGCTGCTTGCATAAGGTTCCCTTTTGGAGAGCTGCACTCTGGCCAGCACGGTCTTCTGTCTGTATTTACTCTTGTAACCGCTTTGGCTTTCCTATTTCAATAAGGCCTTGTACTCCCCTTTTTTAATTCTTATTTTTCCTTCCCCACTTGGGTATGAAATGATTGATCAACAGCACTGTAACCACGCACTTTCTTCCTTCGCTCCAGCCTCCTGTCCGAGCTGTTCCCTTGGGATGGGGTGTACCCCATGGCAGGGAGGTGCCACCTTCCTGCTGTGTCACCGCAGAGCTCTGTGCTGCTCTTTTTGCCAGCCCTCACCTGGGGCGGCCCATCTGCAGGATGTTTCCAAAGCCTTTATCCCTGCTGGCCTTAAATATCCGAGGAGAGGGTGCTGCCATCACTCCCCTCCATGAGGCAGCCCCAGCCTCACAGCAGTCACTGACTGATTCTTAACTTGGAAGCAAAGGTCTTTACAGATAGCTGCAGCCTGGAGTAATTTACAGACACTGACAAATCTCAGCTCCCCCGTGCACCTTCCCCACCAAAGCTGGGCAGAGTGGAGGTGCTTTCAGTCCTGTCTGTTCAGTAGATGGAATGTCCAAGGTCCACTTTGCATGATGTCAGATAATTCTGAACTCCAGCACTGCTAGATTAATGTCCCCATTTGCCATTCATGGCTGTTTCCCTCTTTAATAAATGGCTAATTTAAAGTGCTGCAGCTCTATTTGCTCTGAGCTGTCCACCTGCTGTTCCATGCTGTGTTTGGATGGTTCTGCTTGTTTGCATTAGCCTCATTTCCACAGCCATGAATTGTGAAGTGGAAAAGTTCCATCATTGTGTGAGCTCTTCTGATGGAGGAGAAGGGAGCAGGAAAGGTACTTTGCATCCCCCCCCCCCCCACCTCCAAGGCAGTCTGGTCTTTTGGGGGCTGTAACTGAGAGGGGAACTGAAACTGGAGAGCTTGGAGCTGGCTGTGTCCATTCTGATTAAAGCAGAAGGCAAATGTATTTCAACAGTAAGGGCTGGAAAAAAAGAGCAATGAGAGGGTTAAAATTCAAGACAACAGCTGACTTGTGTTGTAACTTTCAGCATCATTTCACAATGTTAAAAGCAAACAATACTAATTACACTAGTCTCCAGAGATAGTCCCAAATTTCCTATCTAATTAACTTCTGTGTTTTCCTGGCATTTGGCATTAACTTGCATCAATCTTTAACTGCTCTGAAGGAATTTACAGTAAAGAGCCGTTTAGAGGCAGTAAGACTGTAAATGCAAGCTTGGCTGTGGTGCAGGATTCAGGGCAATAACGAAAAACTTCCTTCTCTTTGCAG
Seq C2 exon
GAATCTCCCTCTGTCAAAGACGGCCATTCCAAAGACTCCACTTCAAACAGCAGTGCCATGGGGAAGGAAGGCAAAGATGGTGCTGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003712:ENSGALT00000005891:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.734 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
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]