GgaINT0049897 @ galGal3
Intron Retention
Gene
ENSGALG00000009357 | RAPGEF4
Description
NA
Coordinates
chr7:18793763-18797464:-
Coord C1 exon
chr7:18797376-18797464
Coord A exon
chr7:18793840-18797375
Coord C2 exon
chr7:18793763-18793839
Length
3536 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGT
5' ss Score
6.99
3' ss Seq
TTTTCCTTCTCTTTTCACAGATT
3' ss Score
12.5
Exon sequences
Seq C1 exon
ATACATTGTGATGTCAGGAACTCCAGAGAAAATTTTAGAGCACTTTCTAGAAACTATGCGCCTTGAAGCAACTTTAAATGAAGCAACAG
Seq A exon
GTGTGTGGCAAAAACTGAATTGTTATTACTGCATAAAGTCTTGCTGGAAGTATGCTGTAATGTGATGTTTTGGGAAGCAGCTAGTAGAAGTTTTTCCCAGAATAAAAACTATCCAATGAAACAACTCCAAAGAAACCCAGGAAATCCAGGATTAAAGACGACCATTCACTTTTTCTGCTCTATTGTATTTATACTTTTGGTTCTGAGTAGGAAAGCAGAATCTTAAAAGATGCCAGACCACTAGTCATAACTTTAAATAAGCACAGCTATAATGCCAGAAAAGAGCATGCGTTACCACCAGAAGGTAATGGTACTCAAATTTACTATTTTGGTTGTCACCTGGTACTGTGAACTAGCTTCATCTCTCCGGCCATTTTGTTGCCTACTAGGATAAGTTTTCCCACACTTTTATATCATATATATATTATATCCCACATTATGTTTAAATTACTTGTTTGTGATACTTTTCCATGTGCAGGGAAAGAAGAATTTTTATTGAAAGGAGAGGAACTCAGCACACCATGGGCTGAGTCCCGAGAACGCAGGTTGCTGCAGCTGCACTTAATAGGTTGCTTTTCATTAGTGTAAAGAGAACAGTGAATTTACATCTAAGGATAGAAATATTTACTGCTTTACTATCAGTAAGTAATCTAATTTAAGAGAAAAAAGAGATTCAGGCACAAAAATAATCCTTATTATGATAAAGTGATGCAGAGGCTTTTATGTTAAGCTACAGGATATTGCTTTAGCAAGTTTTTTGACATTACGGATGTCTAAGAGGTATATATTCAAAGCTGTTAATCTTCAGCTATTCTATTACTGACCTCAGAGTACTGGAGAAATGTGTATATTGGGCCACAAATAGTGGAAGAATTGAAAGATTACAGAAATCCTTCTACACTGTTTTAATCACTTTTAAGAATAAAAATGATACTCCTCATAGATACCTAATTATTAGGATTACAGGCAAAACGTTCTTCTTTAAACCTGCAAGTATATAATAGCAATTTCACTGTACATACTATGCCTGTTTTTTATACATTTTTCTTAACTAAATTTTTTTTCAAATCCTTTCAAACTTTGACTCATATAATCCACTGACAAGATTATACTCATATCCCCTTGGGACAAAAATGTCACAATCCACAAGCCAGGCTATTTTTAGGTTACAGGAGCTCAGACAGCTAGAAAATCTCAGTTATGATTTTTGCAATCCCTTAATTTAAGAACAGTTAAAATTCACATTGTCCTGCGTATTATGCAAGATAAAGTCCAATCATTCTGGAGGTGCTTTGTCAACTGAGAGAGATTTTCAAATATGAATTACAGTGAGGCAATGGAGTAATGTCAGGCTGCGGTTATCTCACCATATTTTCTCTGACGTCACTTGCTTACAGCATTTTGAAGTGTTTCTTTTACCTGAAAAGTTGCACTGTAGAAGTGTTTCCTCCAGATCTCTACACTGATTGAGGAGGAATATACCCAAATGTTTCATTTTTGTGCAGACTATTCTAGCCTGTTTTCTTTTTGCTGTGCCAAACTTTCTTTTGACACAGGCAAAAACCTCTTAACATAAATGCAATTAAATCCACACAGATGAGTAAAAAGTTAATATTTCAGCACATATTGGTTCATTCACATTTTCATACTTACTCTCTACGAAGTGTAAAATGACACCTTTATTACTTACCCAAGGACTAATAAGATTTCTTCATTTAAAGAACCCTCATCCTTGTGTTCCCCCAAATGCTCAATTTGCTGTTTTTTTCCTTCTCTTTTCACAGATTCTGTTTTAAATGATTTAATTATGATGCACTGTGTTTTTATAGCCAAATAGTCACCTCTGCCCAGCCTTGATGGCACAATATCCTTTTGTGACGGATAAGTTATTTTCCTNNNNNNNNNNGTGTTTCTTTTACCTGAAAAGTTGCACTGTACCATGTGTTTCCTCCAGATCTCTACACTGATTGAGGAGGAATATACCCAAATGTTTCATTTTTGTGCAGACTATTCTAGCCTGTTTTCTTTTTGCTGTGCCAAACTTTCTTTTGACACAGGCAAAAACCTCTTAACATAAATGCAATTAAATCCACACAGATGGTAATAGTTTTGGCAAGATTTTCAGGAGCTGCATCCTAACCAAGGTGGGTAACAGCCAGAGACTGGGGCATAAGGCTGGCTTGCAGCTGTCTGCCAGCAGGAACATGGAGGACCAGGGTCTGACCATGTGGCAGTGAAACAAATCCCAATTCCTGGGCTTCGTACACTCAACGAAGAGAGAGATTACTCTCTACGAAGTGTAAAATGACACCTTTATTACTTACCCAAGGACTAATAAGATTTCTTCATTTAAAGAACCCTCATCCTTGTGTTCCCCCAAATGCTCAATTTGCTGTTTTTTTCCTTCTCTTTTCACAGATTCTGTTTTAAATGATTTTATTATGATGCACTGTGTTTTTATGCCAAATAGTCAGCTCTGCCCAGCCTTGATGGCACAATATCCTTTTGTGACGGATAAGTTATTTTCCTTTTACAGCTTTCCATACCATTCATTGGACACGAGCTTTTCTCTCTCAAGAGTTAAATTGCATTTCATGGAGGCTGTGCCTTTTTGGTAGGTTCTCAGTATCTGACTGGCAGCTTGTCTTGTAGCTCAACAACTCTGAAATGGGAAACTCATGAAACAGCCATGATGAAATGCANNNNNNNNNNTTACAGGCAAAACGTTCTTCTTTAAACCTGCAAGTATATAATAGCAATTTCACTGTACATACTATGCCTGTTTTTTATACATTTTTCTTAACTAAATTTTTTTTCAAATCCTTTCAAACTTTGACTCATGTAATCCACTGACAAGATTATGCTCATATCCCCTTGGGACAAAAATGTCACAATCCACAAGCCAGGCTATTTTTAGGTTACAGGAGCTCAGACAGCTAGAAAATCTCAGTTATGATTTTTGCAATCCCTTAATTTAAGAACAGTTAAAATTCACATTGTCCTGCATATTATGCAAGATAAAGTCCAATCATTCTGGAGGTGCTTTGTCAACGGAGAGAGATTTTCAAATATGAATTACAGTGAGGCAATGGAGTAATGTCAGGCTGCGGTTATCTCACCATATTTTCTCTGACATCACTTGCTTACAGCATTTTGAAGTGTTTCTTTTACCTGAAAAGTTGCACTGTAGAAGTGTTTCCTCCAGATCTCTACACTGATTGAGGAGGAATATACCCAAATGTTTCATTTTTGTGCAGACTATTCTAGCCTGTTTTCTTTTTGCTGTGCCAAACTTTCTTTTGACACAGGCAAAAACCTCTTAACATAAATGCAATTAAATCCACACAGATGAGTAAAAAGTTAATATTTCAGCACATATTGGTTCATTCACATTTTCATACTTACTCTCTACGAAGTGTAAAATGACACCTTTATTACTTACCCAAGGACTAATAAGATTTCTTCATTTAAAGAACCCTCATCCTTGTGTTCCCCCAAATGCTCAATTTGCTGTTTTTTTCCTTCTCTTTTCACAG
Seq C2 exon
ATTCTGTTTTAAATGATTTTATTATGATGCACTGTGTTTTTATGCCAAATAGTCAGCTCTGCCCAGCCTTGATGGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009357:ENSGALT00000015238:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.056 A=NA C2=0.036
Domain overlap (PFAM):
C1:
PF0061815=RasGEF_N=PU(25.5=90.3)
A:
NA
C2:
PF0061815=RasGEF_N=FE(22.7=100)
Main Inclusion Isoform:
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]