RnoINT0124283 @ rn6
Intron Retention
Gene
ENSRNOG00000005271 | Rapgef5
Description
Rap guanine nucleotide exchange factor 5 [Source:RGD Symbol;Acc:1561668]
Coordinates
chr6:145605283-145608298:+
Coord C1 exon
chr6:145605283-145605373
Coord A exon
chr6:145605374-145608247
Coord C2 exon
chr6:145608248-145608298
Length
2874 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
TGGTTTTCTCACCTTTTTAGAAA
3' ss Score
9.85
Exon sequences
Seq C1 exon
CTGCAAAGCCCAGCAGAACCTAAACTCCTTCTTTGCCATCGTGATGGGTCTCAACACCGCCTCTGTCAGCCGGCTGTCACAGACCTGGGAG
Seq A exon
GTGAGCCTTGGGCTTCCCACTGGGACTGAGGGTGTAGATATGGGACACAATGAACCACTCCGGCGGAGCCTGTGTTAGAAATAAGTAGATTTAAATGGTCTAAACCAGACAGATTCTGCTTCAGTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGTAGGACTGTGGCAGGGTGATAGGAACTATTTCTATCAAATGGCATTTTAGGTGATCTTTAACATGGTTCTCTAATATATATGAGAATGGTTTTTTTTTCCTTTTTCTTTTTTTCGGAGCTGGGGACCGAACCCAGGGCCTTGCGCTTGCTAGGCAAGCGCTCTACCACTGAGCTAAATCCCCAACCCCGAGAAAGGTTTTTTTTTTAAGTAAATGTTTTAAATTTCTCCTCGCCCTTCTGCATTCCCTGAAGGCAGCCCTAGCTTCATGCTGCCTTGTCATCCTTCATTCCGGCCTGTGGAGCGAAGGGCACACAGAGGGGAAGCTAAGCTTCAAGGCCTCCCGCTTGCAGGTCTCAGTGTGTTCACATGAGCATGGGTATCTTTCTCTGCATTCACACTTGCTTTTTTCTTTTCCTTTTTTTTTTTTTTTTGAGTTATTTATTTTATGTATGTGTGTACATTGTTACTCTCTTCAGGCACACCAGAAGAGGGCATTGGATCCCATTACAGATGGTTGTGAGTCACTTTGCAGTGACTGGGAATTGAACTCAGGACCCTCTGGAAGAGCAGCCAGTGCTCTTAACCCCTGAGCCATCTGTCCAGCCCTCTAATTTTCTTAAAGAGCAATTTCTGTATTCATAGAAAGCAAGATGCAGGTGGCCAGTCTAGTTGGCGTTATAGACTCTGGAGGATGTGTGAGAAGAACCTAACCAGAGGAGCTAGAATTATCCAGAAGCAGCAGACAGACCTCTCCCTTGGGTCCCATTCTTCTTTCTGTTTGCTTTTGCTTTCCTGGCCCACCTCTCAGAGATGGCCGCCTTTGCTCTGTGCAGTTCCTCTTGCTCATCATCTCTCTCTCCAATATTCTTGATCCACTGTATAGTTTACTGTGGTCTCCTTGGTCTCTCCTGTTCCTGTAGTTGACTGTCATTCTCCTAGTCAGGAGCTGTGCCCAGTGGAATGCATTGTGCTGACCCAGGGACGGTGTTAGTGCTCTCCCTTAAGGGGATCCAACAAAAGGAAGATATGAAAGGGTTGCCCGTTCTGGTTAAGCAAACCAAATAGCCAAGAACATTAAAGATTAAAAGAGAGGGGAGAGAACTCTAGGAAGACAAATGGAGGTCAAGGGTCTTCACAGAATGGATTAGAGTGAAACCTCAAAAGAACCTTTGACGTGCAGAAGTAATTGAATTAGATCTGAAAATCTGAATCTGCATATCGACTGCCTACTGTGTGTCCCACATACCACACTGCATTGCTGCCACACAGAAGACAACCAGAGAACAGTGCTGTGTGGTGAAGGGCCTGTAAGCCAGGTCTCACAGGCCCACGGAGAGCAGAGCAGCTGAAAAGACTAAGAAGCCGGGGCAGCAGGGCTCTGGTGGTTGAGGAAGAAGTGAGGCTGGGCTTCCCAGCAGATGTGACCACAGGATCTCGGCGTCAAAGGGAAGGGACCGTGTTATCAGATAAAGGAAAAGAACTAGGTTTGAGAAGAGCAGTCAGAGCTCAGCCAGATGTTATGGTGCGCTGATTTTAGGGTCTCTGTTGTTGTTATGCATCAGTCATAGTTAATGATTGAACGATGGCCGTGGGAGTGCTCCAGTAAAAGGTTTACAAAATAGTCTCTAGGTCAGACTTGCCTCCTGTCTGACCTCTGGCTAAGCCAGTTTGATTCGAAGCACACTGAGTTTTAGGTGCCCCTGGGACGTTCATTGAGACGTTGGACAGACTGAGATACAGCTCAGCGGAAAGATTGGAAATAATTGAAAGAGTCTGCATTTTATATTTTATTTGTTGCAGATAAGTTATTTCCAGGTAGATTTGGCTGCTTACTGTGGGAGAGCTGAGTCATGTGAAAATTATCACATTGGAAAATTTGGGTAGTTTTAAAGTTTAATTGTTGAAAAGTTATCACCATTCTTTTGATTTGGTTTGAAAAACCGTCTGGTATATCTTGAACCTTGTTGATAATGCTAATGATCTGTTAACCAGCAACCATGGACATTTGCTGAAAGTCGAGGCCAGAGAGGGTGCCTTGGTTAGGTCAGCTTTCTACAACAGGCCACTAAGGTGTTAAGAAAGGATCCACATTTCCTCCTGTTAGCGTTAAAGGCGTTCTGTCACATTTCCGGGTGTTCATGGAGCCTGCGGTTTGACCTGGGAGGATGGCGCAGCCACACATTTCTGTCTTCTGTCATTTTATAAGCCTCCTATTGCACTCAGATTCAGTGATTCCGTTTGCTAAGGTGCAAGGGGCATCACCTGTGGTCTTCACCATCTTTTATTATCTCGCTTCTGCTGTGCAGTCGAGCAAAGCCATTTATATAGAAACCAGTCGGCCAACGTGGTTATCTCCCACTCGGTAGACCATGAGATAGATGAGCACGTTCACTAGAGATGATATAGAACTGGAACCTAAGTGTCTATTAAATAACCACCAGTGTGTAGACGGTCTAGCCAGCTAGATTCCTTTATCCTGTGGCTGCCAGGATATTTTTAGCCACATGCCTAACCACGGGCATATTGAGTGGATGATGGAGATTGCATAATGAGATGGAATCAGGGCAGAGCCCCACGACAGGGACCGATGCTCAGAAATGTGTTGGTGACTAAGCAGAACTCGATGCAAACATCCCTTAGGGCCCCTTCTCAGCATAGCCACTTTCTGTGACCCATGTGGTTTCTCATTGTGGTGTTTGGTTTTCTCACCTTTTTAG
Seq C2 exon
AAAATTCCTGGGAAGTTTAAGAAACTTTTCTCTGAACTTGAGAGTTTAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005271:ENSRNOT00000007112:12
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:
PF0061714=RasGEF=FE(16.2=100)
A:
NA
C2:
PF0061714=RasGEF=FE(8.6=100)
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]