GgaINT0124533 @ galGal3
Intron Retention
Gene
ENSGALG00000003712 | RAPGEF1
Description
NA
Coordinates
chr17:6907068-6911022:-
Coord C1 exon
chr17:6910866-6911022
Coord A exon
chr17:6907157-6910865
Coord C2 exon
chr17:6907068-6907156
Length
3709 bp
Sequences
Splice sites
5' ss Seq
AAGGTACGT
5' ss Score
10.75
3' ss Seq
CTCTCCCCTCCATCCACCAGGAG
3' ss Score
8.83
Exon sequences
Seq C1 exon
TTCTGCCATCTCGTCCTGCTACAGCCGTGTGTACCAGAGCCTGGCCAATCTCATTCGCTGGTCTGATCAAGTGATGCTGGAAGGTGTGAATTCTGAAGACAAAGAGATGGTGACAACTGTTAAAGACGTCATAAAAGCTGTTCTGGATGGAGTTAAG
Seq A exon
GTACGTGAGCCAAGTTATGGAAAGCATACAGTGTCTGTATTCTAGAAGAGATGTGGCTGAAAGTCAGAAGCTTTTAAGTGCTGGTAAGATCCTGCTCTTTCAGTAAACTTTCCTCTTAAATCAACTGCTCTGGAGGTGAAATGGTCCTGCTTGGTGTGCTGGTTAAAGACCAGCACTAATGGTTTGGCTATTAGTGTGCACTTCTAAATGTTCACCCTGGTATTTGGATGGGTTGCCCGAAGCAGTAAATCTTAGTTGAGCATTGTATTAAATTTTCAGCAGGTGATTCCCATTCTCTTATTCTCCTATGCAGATTACAGGTCTGAGTTTGCATGTTTTCTGTCTAGACAAAATTTAATGGAAATGCTTCCTGTCAGTGCCCAAAGAGAATCAAAGATTCCAGCTTCATCTTTTAGCATGAATGTCAAAGTATTTGTCAGCAGTGCGTCAGCACTTTCAGCAGTCAGGTCAGGGTGTGGGACAGCTGATGAGCTAAGCTCAGTTTTCTGAAGACTAATTTTTTTGTAACTGATGGGAACATTGAATGGAAACCTTTATGTCCTTTGTGAGACACGCTTGTACAATTCCCTCCCTGCAGCACCCAGGGAAAGCTGTTGGGTTTCCTTCTGTGCCCCAGTAAGTTTTTGGTACTCATTATTTGTGACTGTTTTCCAAACTTGTCTCTCTGCTGGAGGCCACAGAGGCCGTGCATTCAGCTGTCCCAGTACTGCAGTTAAAAGTTTGCTTGACCTGGACTGAGAGGCTGTCGTATCCCCTAGGAATCTTATTTTGAATACTGTAGAGAAGGTTGAACATCTTTAACAACAGGGCTGAACTGGCAGAGCAGTGTTTAGTTCAAGCACAGTAGGAAATTTAGATTTTTAAGAGCTGCAGCAGGTTCTTCAGCTGGATGAGTGTGTCAGGAAACAGTGTCTTTGGCTGTACTCAAACTCCATTTAGCTTTTATTATCCGGAATTGAATGTGAAAATCCAGTGAATATCCCAAGCTTTGACTGTCGTGCTTTCAGGAATCTTGATACGTGTTGTTTGCATGCTCTGAATATCTCTGTAATGTTACTTAAACACAGATACTAAACCCTAGTGTGACTTATCAATCCTTTAAAACTAATATCTTTGAAAGAAAACATTTCCATCTCCTAAAGTGGACAGATTTGCCAGGATTACTTTGCACAATATGCCCTTTAACTTTAAGCTCCAGATTTGAAAAGTAAAGCGGGTATTAAGTTTGCACAGCAGGATGGAGAAGAGTTCAGCATTAAGTCTCAGCTTCTGTTAGTGTTGCAATTCAGCAGCCATTTGCAGTATATGAAAATCTGCACTCTTGACAGCTGAACAATAGTAGCCTGATAAACCATGAGAGAGTTCACCCTGTTACCACCCAATGAATCTACACGGTCCTGTGTTCTCACTAGATCCAGCTTACAGTTGCATGAAACTTGGGACACTCGCTGTCCTTTCACTTCAAGCAAGGTTTAAGCACCTGATACCAGTTGCTTCCCAACCAAAGCAGTGTGCATGGATGGATGGATGGAAGGTTATGGATGTCTGCTGAGCCAGCCTAGGCTGGAAGCAGTGCAGGCACAGCTGTGCAGTGCTAAGCCTGAGCTATTAACCTCACTGGGCTGTATCAGTCTCCACTTGCTGCTAGACTAGAAGTTATTTTGGCCTTCCAGTTGGAGCTGGCTTATGTCTGGTCAGCTTGGAACATGATGAGAGCAGATGTGAGGCCGTCCGGGTAGATGTGAACATCTGCCCACCAAGACTCAGTGTTTGGAAGTGCTTTGTACTCATCTCCTACTGCCTAGCAAGGAACAGAGTTTATTTTAGAAGGGCCAAGCCAGCCTTCAGGTCTGGAAGCAGAACTGAGAAGCTGGACACTTCTCTGCTGTGGAGAGCCTTTTTTGTTTTTCTGGCAGATCACACAAGATCCACTTCCACATTTCAGTGTTTACTTCCCCCTCTATTTTCAGAATTGAGCACAAATGAGCTGCTTGTTCACTTGTGCTGTTTGCTGTTCTGATCGCAGGTTTTAGTGGCTTGCCAGCTATATATAACAGGGAAAAAAATCCTTGTTTTGATTACATAACTTCTTAAAAATCCATCTCATTTTGGTATTTCCAGTTTGCTGAAGTAGTGTAAGTTTGTGGAGAGGCTTTAATTATCTCTAATTACTGCTGCAGGAATCTCTTTACTTGCTGATAAGGAACAGCATAATGTGCATCTGGCTCAGTTGCGTGTTGATTACCTCTGTGTGTGCACTGAAGATCTTGGCTTGATTTTCAAACACCAGTTCTCATTCTGGGGTTAGTGGAGAGGAGAAAAAGCCAGGATTCAGGGAATCTAGTGCTTTTGTGGTTTTGCTAGTGGAGGTACTTCTCAGTAGATGCCAGGGCTCTTGTCTGCCTGTCCCAGACAGGAACATCTTCGTAGTGTTAGCCCAGATGGCCATCTGTATGTGCTGTGCTTGTGCACTCTCATCCTTCCCCATGTGTGGGCTTTTCCGAGACAGCTTCTTTAAAGCTGAGCATTTTGTTGTGTGTTTGGTGGACTCTGTGAAAATTATGCTTGTGCCCAAGGTCGTACTGAGGATGTAAGTACATATAATGGCCAAGTCAAAATCAGTTGTAGTGTGCACTTAGACATGTTGACGTGGGTTGCGGTTTCCATCCTTTGCCCATCCGGGGTGCTGCTTTATTCTCTTTGTGATTATTGTATTGGAAGAGGAAATGACCGTTTCTGACCTCAGCAGTCACAGACGTGAAGATGGTACTGGAATGATGACATTGTGTTTCAGGCTGCTAGTAAATAAAATTGATCCCATATAATTTCCTTTGCATAACATGCTGGGAAGCCGATACTGCCAGGAAGCACTGCCAGTTATGCAGCCTAACTGTGAGAGGGCACGTGTTTGTATCTGTGAGCAGCAGATCTATTTGTTGGCCTCAGACACCCATGAAAAGTTCTCTCCATCCTTCTGGAATGAGTGATTGTTGCTTTGACTGCTGGCAGACTTGGAGTTCAGGATTATCATGCGCTTATCTCTTTATCCACCGCCTTATCTGCCTATAACAGATAGGCTGTAATAGTTCCCTGAATGATGAAGACTTTCGTTGCTAACGAGTTAAAAGATGGCTCCGGGGGGAGCAGGCCTTTTAATAAAGGTGTTCACTGTTTGATTTCTTGTTGGACATCTTTCAGAAACCAGCCTTTTGAAACAAATACATGACACACGCTTGTTAGTGAAATACGAAGCAGTGAAATAAGTCTTTTACTGGCCAACTGAAATACTTCATGCAGAAAGCATTTATGTACTTGCATTTATGTATGTAAAGTCAACTTGATATTATCTAGGGCATTATGGGGACTGGAACGTATTTGTGATGAAAGAGGAAGCACGGCAAAAAGAAATGTATGTGGGTTTGTGCTGAATCCCCACAGGGCTACAGTTTGTGAACTTAAATATGGCTAAACTGCTGCTGGGTGCATGCTGCTCCCTTACCACCTCATTTGTGTGGCTCTCCACGGAGCTTACACCCAGCTCAGCTCACTGCCCATGTCAGCATTAACCCCTAAGTGGGTACCCCAGAGTTTATTGCAGTAGAATCCTGTTCTGTTTCAGCACGTTTGGGTGCAGCATTATGCATGTAATGATTCTTTTCTTTTTTCTTCTCTCCCCTCCATCCACCAG
Seq C2 exon
GAGCTGGTCAAACTCACGATTGAAAAGCAGGAGCATCCCTCTCCCACAAGCCCTGTTAAACCCAGTTTACCAGCATGTAAATCTGATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003712:ENSGALT00000005891:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.057 A=NA C2=0.833
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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]