RnoINT0124291 @ rn6
Intron Retention
Gene
ENSRNOG00000005271 | Rapgef5
Description
Rap guanine nucleotide exchange factor 5 [Source:RGD Symbol;Acc:1561668]
Coordinates
chr6:145582434-145584958:+
Coord C1 exon
chr6:145582434-145582512
Coord A exon
chr6:145582513-145584808
Coord C2 exon
chr6:145584809-145584958
Length
2296 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGT
5' ss Score
8.4
3' ss Seq
TTGTTGTTTGACTTCTGCAGTTT
3' ss Score
7.59
Exon sequences
Seq C1 exon
AATAAAGCCCTCTTCCATCAATTCAGTCTTAAGGAGAACTGGCTCCAGCATAGAGGAACTGTGGCCGAAACAGAGGAAA
Seq A exon
GTGAGTAGCCTTGTACAAGAGTCACCTCCTTCCTACAGAACTGCCTGCAACTGTCACGACTAGGATGCTAATATCAAATACATGGTTTTTCAAACCATATTCTTTCAATGACCGGGAATATTCTTAGTTTGGGAAGCAAGTGTTCTTTCAAAGACCAGGAATATACTTAGTTCGGGAAGCAAGAACAGAGATATGTGTACAAAGCTCTCTTGTATTCTGCAGCAGAGGTACAAAAGATGCTGCAAACCTGGCTTTTTCTTCCTTAAACCTTCACTCTGGCCCATGGCCCAGGATTGACCTGAAGGGCCACCAAAGCCAGTGCACAGAGCCTTAGCTGAGTCAGTCCCTGAGACTTAGAAAAGACAGACAAAAAGAAGAGGGTGGCTGTTCTTGTGGTGTGGGTTCTTGTGTTCTCTGAGGGAGAAGTTCTTGTGTAACTCTGGAGCATACCCAGAATGTATGTGACAGAGTCAGTGCTTAGGACTCATAACAGCCCACGGAGGCTGGGCATTCACCAGGCACAAGGGGAAAGTCCTGGTGAGCAGCCTGCATGGGCTTGTGTACTTTGTTACCACAGAACCTGAGTGGTGGCAGAGGTTCCTTGTCTGGGCAAAGGCTGAGGGAATGGCAGGAGAGACAGGGGAGTGGAATGCTCTTAAGAAGCTCCCCACGCTTCCTTTCTCCCCACGCTAAACTTCAACGTGTGGAGGCTGACTATCTGTTTGACTTTTTGAACAGTTCCAATATAAAATCTCTTCGTTTATTCTGCCCCGGGGTGTTTTGTCTGGTGCCTCTGGCAGAAAGCTTTCCGTTGTCTCATGTTAACTATCATCTGCCCCAATGAAAGAGCAAATGCAATTACCTTACCTCCTAATTCGTTAATCGCTGGCCTTCCTTGTCCATTTCTCTTACAATTTAATTGTGGAGTTTGCTAAGCTGAGCTTCTAAGAAGCTGGGCATTGCGAGGCCCTCCGGCCTCTTCTTGTTCATCAGTTTATTAAGCAAGGATAAACTCAACCTCTATTTAGTAGTTTATAGACTGGATCTTGGTTCAGAATCTCCACCTTGAGCAACCTAAGCAAAGCAAAGCTCCAATGGCTGGTGCAGGGAGTGAGCTCACTTGTGCCCCAGTGGCAGCAGCTTACTCCCTGACTTGGCTGCTTTTGCATTTCTGGAAAAATTTCCCTGGGTTTAGTCTGGTGATGCTATTTAAAAAGCACATGGCATTCTCCAAAAGCTATAACCCCCTGCTTGTCTTTGAGGAAGTATAGAGCAGACTATCTAAGTATATCATTGACCTGTTTAGTTTAGAGGCCCTAGTGCTTACACGCTAAGGGGAACTGTAGTAAGAAGTACCTTGTCACAGGGATGCTCATTACCAGTAAAACTATCTCTACTGTGCAAATGGTGAAGAAAATGTTTTTCCGGGACCCATTCATCCCAACGGTGATAATATCCTATTGATAATTAATAGCACTGCAAACAAAAAAAATAATTTTAAAGGTTAGAAATATGACCTCCATTTAAAAACTCGTCAGCACTTCAAAATGGATCAGGGCTGGAAGCTCATTCTTGAATGACTGAGAAAATTGCACACAAACACCAAGGCAAAAGACATACTTTCAGGTAAACTTAGAATCCTAATAGCGGGCTGAAGAGATGGCTCAGCAGTTGAGAGCATTGACTGATCTTCCAGCGTTCCTGAGTTCAATTCCCAGCAACCACATGGTGGCTCACAACCATCTGTAATGGGATCCGATGTCCTCTTCTGGTGTGTCTGAAGACAGTGACAGTTTACTTACATATAATAAATAAATCTTTAAAAGAAAGAGAAAAAAAAGAATCCTAATAGCAGGTGTACAGTTCTTGATCAGACCAGTGAGGCTGTCTTGAAATAGAGTGTAAAATAAAAATCCATGTGTTAGACATTTTGATACACCGCTTTGGGAGTTTTTAACAACTCTCAAGGGAGGAGTCCAAAAGTACAGTCTGTGGAGTGTGGTCTCATGCGACTTCAAGCAGACCGTCTATCACAAGCCCATGATGGGGTGACCAAGGGATTCCTTGCAGTATGGGAAACGGGTCAGCTGCTCCCCCGTGGTCCCTGGCCTCCTGCATTTGCAAGCACATGCTGGCAGGCTGGACCCTCACGTACTCATCCCAAGGTCACCTAGCTGCTCACACCTTACACCTAAAACAACAGCAAGGTAGACGACAGCTTGATTCGAGTCTGTCCCTCGTGGTCGCCATTCTCTGAATATGACCTGTTTGTTTGTTTGTTGTTTGACTTCTGCAG
Seq C2 exon
TTTTTTGCCACGTGTATGTGACGGAGCACTCCTACATCAGTGTGAAGGCAAAAGTTTCTAGTACAGCCCAGGAGATCCTGAAGGTTGTGGCCGAGAAGCTGCAGCGTGCCGAAGAGGATCTGGCTCTGGTGGCCATTATGTTCTCTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005271:ENSRNOT00000007112:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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]