GgaINT0124545 @ galGal3
Intron Retention
Gene
ENSGALG00000003712 | RAPGEF1
Description
NA
Coordinates
chr17:6876764-6879707:-
Coord C1 exon
chr17:6879632-6879707
Coord A exon
chr17:6876849-6879631
Coord C2 exon
chr17:6876764-6876848
Length
2783 bp
Sequences
Splice sites
5' ss Seq
AAGGTACAG
5' ss Score
8.04
3' ss Seq
TTCTTTGTCTTTCTCTGTAGATC
3' ss Score
12.57
Exon sequences
Seq C1 exon
GGAGATGATGGGCCAGATGTCCGCGGTGGATCTGGAGATATTTTGTTGGTGCATGCAACAGAGACCGACAGGAAAG
Seq A exon
GTACAGGGGATGCCCCAAAACAAAGCTGGGGAGTATGACCTGATGTGGGCTGGTGCTGCTGGGCTTCTGCATCTCTGTGGTGGGGGCAGTTACGATGTGACTCTTGCTGCTGGACCAGGGTGGAGAGCTCTGCATTAATCATCCCCTGAGTTGCGGGGGGATTGTGCTTATCTTTGGTGAAACAGAGGTAAGCTGGATAAGCGCCTGGTCATTCCATTTCACAGCAGGGCTGGAATTAACTCCTCGTGGCCCTGGAGCCAGTGGCAATGCTGCCGTGGTGTCTCCAGGCCTGCTGAGGGCAGATTTTGTCTTCTGAAAGCACAGAAGTGATGGGGGCTCTTGTACCCGTGGCCATCGGGCAGCCCACCCGGCACTGAGATGCTGCCATCTCTTCCTCATACTGCCTCGCTTCCTCTCCAGCTCTGTACCACTACACCTAAACCAGGGCAGGGAGGGAACTCACTGCACGGGAAGTGAGATGTGGAGGAGAGAGCCAGGGATGGCAGCTCTGTTTGTTACAGCCCCACTCTCAATCCGGCCCCGGTCACCACCCCGTGGAGCAGCTCCTCTCTGAGAGCTGTGACACACACAGTCGTTGCAGCATTGCCAGGGAGTGATTTTGAACCTGCCAAATGCATTTGTGCTGATGGCCTTTAACCAGAATTGATCTCCTTATCTCCTGGGATGCAAGGCGAAATGTTCTAACCCTCTGAACCACTCAGCTCTCATATTTTAGAGGTTTGATAGTCAAAGGGGAGATATCTTTCATGTGCATTTTTAAATGGCAGCTCTTATACTGTGGCATAAGGTGTTTCCAATTACTTATAGCACCATTCAGCTAGCAAGAAAATCCTTCCCTTGGCAGATATATTTCCCTATTTACGTCAGGCATTGAATCCAAGCACAGAGGACCAAAGTTAGGAACGTACTGGAGAGAAGGAGGCGATTCATTGCACTGTGGTTAGATAGGTACATTAAAAAAAACCTAAATGGAAATGCCCCATGCAGAAAAGCCAAAACTGGAATAGGGAAGCTCTGAGTTACTCTTGCCGTTCTCCATTGTAAGAACTTCCCCACTGTGTTGAAAGGCCACCACTCGACAAAGGGATGTGTGCTCAACCACCAGTTCCTGAATGGGGAGCTCAGAGGAGGCTGCAGGCAGTGAGGTGAAGGCTGTGGAGAACCTGTCGAGGTGAGGGAAAAGCAGAGCAGGATTCTAAATGCACAGCAGGACAGGGGGAGAGGATGGGCGGAGTGGGAGCTGTGCGTTTCTCAGAGCACTCACACAGCTCAGCCTTGCATGCTCTGCCAAGCTGCTGATCTGAATGGAGCACGGAGGAATTTGTGCTATGCTAACCCAGTGTTTGGGTGACTGAGAGGGTTAATGAATTAAGCTTACAATGAGAAGAATTCAGGGCTTGTAAATCAATCAGCCAAACAGCACAGAGGGGTATAGTTAAGAGGCTTTCCTTTAAAGATGAATTTCTTGGCAGCTTTGAGTGCCAGAGCAGACCAGCTGTATTACCTCACGTTGCCTTTTGGGCAGATGGGAACCCAGAATAAATGTAACTCCACGCCCTGTTGCATGATGCTTCTTGTCCATTTGAGTTTTCTGTAAGAGCTAAATGGAATAAGGGATGAAAGGAGACTTGTGGTCTTTGGGAGCAAAATCCACGGTCAGTTGAGTGCTCGCAGCCGTGTGCGAGTGCAGGATTACAGCTGGAGCAAGCCTCGGGCTCACCCCTGACATGACCACCCAGCCTCCAGCTTTACAGCTTACATCTGATGGCTTTAGCCAGGAGCCAGCAGCACGCTCTGCTTTCAGAGCAGGAGGAAGCATCATCTCTATGAGGCTCCTGCCAAGAGAAACGCTGCAGGTAGCGACGCACGGCTCTCACGCTGTTCCCTGCTTTCCCACCCTTCCCTGCACAGTGGGCTCACGTTCCTGCACGTGGGTGTGGGTGTGGGGTGCTCCCTGTCCTGGTGGAACATGCACAGCCAAGCCTGGGCAGGCACAGCAGGAGCCTTGCCCTGTGGGTGCTGCTGAGCCTCTCCAGCAGTCACAGCGGGGCAGGCAGGGCAGTGTGCCATCCCACTGCAGATGCTGACTGCAGCACAGCTTGGTTTGATATCAGGGCTAATTAACTTCATTCTGACCACGTGGCAGCGTTCGTGTCATGGCAGGGTCGCACACGGGGCACGGTCAGCTTTTGCTGTGCAATTTACTCTTTTGGTTGAAAATAATCAGATATTTACACTGCCCTGGGGCAGGCCTCCCGGAACACAGCAAGGGCAGAGGGGCTGCAGCACCAAGCCATCACACTGAAGTATGTGTGTTCCTGTTCAGGAGGGAAGTGAGTGTCTTTTGCAGGGCTTCGTGCTGCCTGAGCAGTAAAGACAGAACAGGCACCCACCTCTCACTGTCAGATCTTCTCTTTAAAGCATCCCCAGGGCTTTCAGCACATTTGAATTTGACCTCCTATTGTAGTTCCTGTCCCACAGGCAGGTGTGTTTCACCAGTCCCTTCGGTGGTTGCATAAGCTGGAAAGCAAATTGGAGTCCTGCAAGTGGGAGCCAGCCTGGGGGACAGGGCAGCTCCTGCTCTTGTGCCTTAGGGTCCATCTGCTGGTGAGAAACAACAGCACAGCTTTCCTGTACAGCTCATCCTTGTCAAAATGTGTGTGTGTCAGTGTCCTCTTTCTGTGAGGCTGGATTCAACCTTACATGAAGCTTCATTTTCTGCAGGCAGGGTTGACTGAGGCTTTCTTTGTCTTTCTCTGTAG
Seq C2 exon
ATCTGGTGCTGTACTGTGAAGCCTTCCTGACTACATACAGGACATTTATTACCCCTGAAGAGCTCATCAAGAAGCTGCAGTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003712:ENSGALT00000005891:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.423 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0061815=RasGEF_N=PU(20.0=76.9)
A:
NA
C2:
PF0061815=RasGEF_N=FE(28.0=100)
Main Inclusion Isoform:
NA
Other Inclusion 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]