GgaINT0049896 @ galGal3
Intron Retention
Gene
ENSGALG00000009357 | RAPGEF4
Description
NA
Coordinates
chr7:18797376-18800651:-
Coord C1 exon
chr7:18800536-18800651
Coord A exon
chr7:18797465-18800535
Coord C2 exon
chr7:18797376-18797464
Length
3071 bp
Sequences
Splice sites
5' ss Seq
CAAGTATGT
5' ss Score
7.44
3' ss Seq
TGCTCCTTTCCCTGCCTCAGATA
3' ss Score
8.68
Exon sequences
Seq C1 exon
GACGTGGAAGCAAATACTGTAAGACTCAAAGAACATGACCAGGATGTCTTGGTGTTGGAGAAGATCCCAGCAGGAAACAGAGTTTCTAATCAAGGAAGTTCACAGCCTCAGCACAA
Seq A exon
GTATGTTACCATTCACTAGTATGGATTTCAGACAGTGATTCACTTTTTCTTACATATTATTAACCAAACAATAGCATATTCTCCCCTATCTGTGGAAGAATGCAGAATATATAAAATTTTCTTTTATTTTTTTAATCATAAGCTGATCACATGTCCCACAGCGCATAATACATCCATTTCCAGCCACACACCAATTCTATGACTCTACACAATAATTCTGTAAGGATCTCACCATAAATACTTATCTCATATAATAGCTTCTAAATAGACTGCACATGGAGAAAGCTGAAACCCTATTAAGTAGAGCTACTGTGTAAAAGACATGAGGAACTACACTGTTTTATTGTTAAGTGCAGATATTTTCATTCTGGATTTTAAATTCTGGATTATAAGAAGTGTTTTATACATACTGTTTATATACAAATGATGATTTAATGCGATGAAAATCGCACAGCTTATCTTACAGAATACGTTTGTGCCATAATAACAATACTCCTTAGAGTTTCTTTACTTTCTTACTGAAAGGGGAAAAGTAGACTTGTGTTTGGATGCTGTGATAAGAATGAACTGAGGCTATTATAATTCCATAATTCCAAATGTTGGTTAAACCCCGAAGGGCTTTGTAAATGCCTTATTTACAAGTGGGTAGACAATTTCCTTTCACATAATCATTTCCTTTAGAAAAGAAATTTGAATCGTTTTCTTTTTCTCTCAAAAAAAAGTAGCTAATTTACTGGGGGATGTTTTGGATACATATTTTATCTGATCTGGGATTTCACGTAAGTATTTTATGTGCAAAATTGAATATAAAGTTCTGTAAAGATTTGTGAACAGTTAAATAAACCAGTCTTTATATTTCACACATTTCACATATTTCAGAAAATACCATTTCATCTTTCAGTTGATCTATTAGAAAAAAGATCAAAGAAATCACGTACTCTTAGGGCTGATTATTCCTCCGTCTAAACTAGGGGAACTTGGCTGTAGGCAGTGGATTTGCATCTTTGCAATCTCTTTGCACGGCATTACTTCTATTGTTTAACATTTTCTTGTTCAGCATTTGATAAAAATAGCTGGTGCCAGCTTATTTTACAACTTATACTTCAGGAATATTCGCAGGTAAGGTTCAGAATTAGCTTCTATAAATATTTTATACGCTTGGTCAGCTTTTGGGTCCTATCAGTGTGCCAGTAGGAGAACTTCAGCTGGTAACTGTGACAGTGGATACAAGCGACGTGAGAGAGGAAGTTACTTTGAAAGTTCACTGGCTGCTTTTCAGCAGTCATATTACTTTGTTAGCCATGTATTGGCAACATGTTTTTGTTTAAAATCTTTTGAAGTGAGTTAACTGGACTTGAAGATGATTTTTCCTTTTTTTCTTTTCTTAATAGGTAGAGTAAATGACTACTATTATGCTTGGGAGTCCAAATCAAAGTTTCTGGTGTATTCAGGTTTCCAGAATGTGTTACTGGAGTGCTTGTTGAGTGCTCAGTACTTTGGAAAATCACTGGGCCTCAAAGAGAAGCTTAACTGGGACCACTTCTTAAAGGCTTTCTGTTTTGCCTTTAAGTGAATAGTTCATGTCTCTGATGATGTCTCTAAAGATGAACTGCCCTTTGGGCTTTGTTCACTAAACTGGTACATAATATTTGAACTGGAGAAATGTTCTACAATCCAGAATTGTTCCCCAGCACGTCCAGTCAAACAAGAAACTTATTTTCTCCATCTTAATCTTGGTGAAAACTTCACTTTGCGAGCAAATCCTCTGAGCTGCGGTTTGGTTTCTGTTGCCTCCTCTCCTGAGGAGATGTAGCTCCCGGAGCCATGGTTTCATACAGTGACAATTTTGCTTCAAAGCTCTGAAGTTCTCACTCCCAAGATCTAACTTCTCTCTTTATGGGTGATCACGCTCATGCAGGATAAATCCAGCAGCCCTGCAAGTCACTTCACTGTTCATTTTCGCTTTCATATTCAGAGTACAGCAACCTGTGATTTCTCTGCTTCACTCACTTAGATACTTGGTTAGTATCTCTGTGAGAATGTGCACTGGCTTAACAAGTGTTTGTGTTCTTGGGACATCAATACCGTTCCTCCAAAGGGGTTGGCAGGTGAAAGAACTGTGACGGTCAGCACTCAAAGTGAGGAGGAGCTCCCAGGAGCTTAGCTCCACCACTTATTTCTCAGCAGGAGCAGAGTATCTTCACTTCTCGGGGTTTTTTCTTTCTTTTTTTCATTTTTTTTCAAGTTTTATACTTTATGATTTGGATTCCAAAAAAATGAAAAAAAAAAAAAGAGATGCAAAGATTGGAAGAATGGAGGGAAAGATAAAAAAAAAAATCTGATCTGCAAGGAGAGTCAAAAAAGATGGCAGGACAAGTGTAGCAATATCCTGTGACATTCTACTGGATCTTAAAATGTTGCCTGCATTCCTGCATTGGACGGGGTAACCCAACTACTGCACTAGTCTACTCACCGCTTTCATTTTAATCCTGGAAATGGTACAATAATAAGTTTATCCTCTTGCGAAAGCTTACTTACCTCAGCTATCTATGGTGTTACGCAAATCTGAAGGTTCAGCATGGTATTTCATTATCCGCTCCCATCTTCTCATACCAGCCCCTATCAATGATACTGGAGAAAATTGTTTGCTTGCTCTGACAGTGATACAAACCTGTTCTCATTTCATGCCCATAGTAAGTCTGTTAAGACCCTCTAATGACTACGAATTGCTGTCATTACTGAGATATTCATTCTCTGTGGAGAAGCATTTCTGATTGCACTTCCCCGGGTTTGCACCAGTGCAGTTCTGTTGATTGCAGCATCACTGTGGTGATGTTAGAGTACTTGTGCTGCGAGGGGGCTGTCTGTCATCTCGTGCTCCCTGGGTAGGGCAGAGAGTGTTATTGCATGCATTACACAGGGAGCAACAAAGACTGTGTGTGGTTTCATCCTAAGACTGGTCAGAGCAGGTTTTTGCACTTAGCACTCTGTATTTTCTTGCTTAGCCTGCAAATGTTTCTTGATTTGTTGTTTCACCTATGTGACACTAACTGCTCCTTTCCCTGCCTCAG
Seq C2 exon
ATACATTGTGATGTCAGGAACTCCAGAGAAAATTTTAGAGCACTTTCTAGAAACTATGCGCCTTGAAGCAACTTTAAATGAAGCAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009357:ENSGALT00000015238:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.224 A=NA C2=0.056
Domain overlap (PFAM):
C1:
PF0002724=cNMP_binding=PD(2.3=5.1)
A:
NA
C2:
PF0061815=RasGEF_N=PU(25.5=90.3)
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]