RnoINT0124198 @ rn6
Intron Retention
Gene
ENSRNOG00000014316 | Rapgef1
Description
Rap guanine nucleotide exchange factor 1 [Source:RGD Symbol;Acc:619793]
Coordinates
chr3:8244434-8254046:+
Coord C1 exon
chr3:8244434-8244590
Coord A exon
chr3:8244591-8253957
Coord C2 exon
chr3:8253958-8254046
Length
9367 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
CTCTTCCTTCTCCCTCACAGGAA
3' ss Score
11.72
Exon sequences
Seq C1 exon
CTCAGCCCTCTCCTCTTGCTATAGCCGAGTGTACCAGAGCCTTGCCAACCTTATCCGCTGGTCTGACCAGGTGATGCTCGAGGGTGTGAACTCAGAAGATAAGGAGATGGTGACGACTGTGAAGGGTGTCATCAAAGCTGTGCTGGATGGAGTGAAG
Seq A exon
GTAAGGGCAGGTTTCGGGCAACCCTGACCGGGCAGCCAGCCGGAAGAAGCTAAGAACTTGATTTTAGACCATACACGGGGCGAATGCCTTCCAAAAGCTGTGGTATGGGCCAGTTCTAGTTCTACCCAGTGACTGCTTCACTCTCAGAGCCATCAGCCCTTCCTGCAGATATCTGGCATGAAGTCCTCTGTGGGCCGTATGTCCCAGCTGTGACTCGATGGAGATTGTTTGTCCTGGCTTTTAGCAAAGCCCCCAGTGTATCAACTGTTACCTTTTCGTGTCATGCGAACATGTAGGGTTCCTGGTAGAAAGCAAGGTTGAAGCTGAGTGCGCTTGATCTCTATGATGTGATCAATGTGTTTACTATCCAGGAAATTGCAAAAAACCTCAGAGAAGATTAGGAGTCACAATTGGAGGGCAAAACAAAGACAATAGAGGGCCTGGAGTTGGGCCCAGAAGCCAGACTAAGAATGTCAATGCCAGTAGATGAGAAGCAAAGCTGAGTGGAGGGCGTGAAATGACAAGGGCATGCAGTGGGCGGGAGGCACTGTTGGAAGAGGCCTTCTCAGGCAGGTAAGACGCTTTAAATCCCAAGCTCCTCACTGAGTGGTCCTTGGGCACAGTTTACTGCCATAGTCCATTTGATGACACCCACAAGCACACCCAGAAGCAAGAGTGACAGTAGGGCCCTGCATGGTAGCATTGCAGGATTAAACTAGTCAGTGCGGGATGTTCTAGAACAATGCTGGAATACACGAAGCCCATTCACATCTGTTTTTATTAATCCCGTGGGGCTAAATGCATGCTTGATAGATGTGGCTTGGAAAAGCTGTGTCCCTTCTATAGACCCTAATCCAAACTTATAACCACATTAGTTAGCCTAGGTCAGAAAGACTCCCTCCTCAGCCAGACTGTGAGGTTCCTGAATCATTCCTCTTGGTGGAGTGTTCTTTAGAAGCTCTGGAAAACTGAGCTAAGACCCCAAAGGGTTTTAATTACATAGAGAAGGCCAGGGAGGCCTTGTTTGGTGAGAGAAATCACTCCCAAATGGGCTGTTAGCTAAAGCCCCAGCACCTTTAAAGGTGAGGCTGCGTGCTGCTGTGTCTACAGGGACTTTGGGTTCACTTTGAGGAGAAGATATGACAAGCTAACATCAGTGCTGTCCATTGACTGCCTCCATGCTCTCTTATCACAGAGCCAGCAGACTCTATACCATCAGCTTTAAGAGGCTATGGGTGTTGGCCACAGTCTCTGCAGTCAGTTTATCCCCTCAGCTCTTCCTGCAGCTTCTCTTGTGGGCAACGTGAGACATGACCTTCCTGTGCTTTCCGGCCGAGTTCTGACTCTCCCACTCTTGCTGTTCTTGTCCTGGCTTCTGGAAATCAAAATTATTTTCCAGATGACATTGTTGAGGTTTTCTTCTGTCAAACTGATCTTGATGAAAGTCATGAGTTAAAACAGCTGAAACGAGATCCGTTTTCCACAGAAGCTTCAGGACACTCCATAGTCCATGCTCTTTGTGGACTCATGAAAGCAGGGCTGTACTGGTTGGCAGAAGGAATGTTTGAATGAAAATCGCTGATTTCTCAATGACGCTGGGGCTGGAAGCACACATGTATAACCTGTAGAGCTTGAACACCCCAGCGCCTGAGAGCAAAGAACTTTTTCACAGGTTTGTTTTTAAATAGTTTACCCAGAACAGAGTAAGACGAGAAGGCTCAGCAATGTGGAAGGCAGAACCAGGAGAATCTGCCAGAAACTCTTGGGCCAGCGAGCCTTGAGTTTACAGTGTGGGGGCAGAAATGACAGAGAGACTCTGCCTTGGAGAAAACAGACTCTGAAAAGGTGACCTCACACATGCATGTGTGCATGCACGTGCATGTGTGCATGCAGGTGCAGACATGTGCATAAGCACAGTTAGCACACATACAGAGACTGCAGTAGATAAGGAACTCTGTATTCTGTGGGGTGTTGTCACAGGACTGCACACAGAGATGAATGACAGGCACAGGCCTGGCCTTGGGGAGCTTCGGGTTACATAAAAGGATGCCACATGCCACAGCAAGGAGTGTTCGTGGTAATGCAGAGGCAAGGAAGTCAAGAAACATCCCAGGAGTCTAGTCAGCTGTCATGTGTTACTAGAGGCTTCTTCTAGAGGGCATCAGTCAAGGAGTGAGATTGGTCAGCATGGCATTTATGGTTAGTATCTTACAGTAAAATTAATGGGTGCTATTTTACACTGCCCAACTTTATACTTGACTGAGGCAGACACCTTCACTGGCAGGCCAACCAGGGTTCAGTGGCAAGTTCATGGTTCTCACGCATGCCTGCTGGGCTTACGCACTTAGTCACCCTCTGCTGCCCTGTGCTAGGAGATTCAACCCAAAGGATCCTCCTCATTCACATTTCCTAACAAGGACACCTCATAAGCCTGTGTCCTGGTGTGTGAGCAAGCCTCCCTCAGCTGGGAGGGCCAGGAGTGTTCAAGCACAAATGCTTTAGCTGGCTGTCTTCATCCCACTGGGAAGAGAAACAGTGCATGCCTTCAGAGTAGCTCACCACCCCTCAAGGCGCTCGTTCATTTGTTAAATGGAATTGTTTGAGGGTGGGAATCGGGGTAAGACTGAAAACTTGCCTGAAAGGCAGATAAATGATTTGGTATTGTTCCTACATGAACACTGTCATCTGCCACGAAAATCTTCACATTAATGCCACTTGTGAGCTGTGTAACCTTGGACAAGTGACTCCTTGAGATTCTTGTAGGTCCTTAAATACTCTGAGTGTGTGAGGAGAGGTAAGTTTGTGTCTTTGAAGTACAGGCAGCAGGGTGGGCACTCGTCACTATGGCAACTTTTACCAGAGTAGCTAACATTTATGTTTTGGATGAGAACTGTGTCTCCCTCAGGGCAACTCACAAGTTTCAGGTCTTCTGTACTGTGCCAGTTAAAGACCCACTTCTCCTCCGACGTGGCACCTTTTGCCTTAGGAAATGTCAGGAACAGGCCCTTGTACCCCCAGCCTCAGCCACTCACACAGACTAACATGTTATCATTTAGAATAGTACTGTGGGCTAGAGGGGCAGGCCAGTGGCTAAGAATGCACCCTCTCTTCTGGACGACCCATGCTCTGCTTTAGAGCGTCTGATTGGACGGCTCACATAGAACTCCATTTTCTCGACCTCCGTGGGCATCTGGACACTCACACAGATACATACAGAAGGGAAAAAAATGTGTACTGCTCTCTTCCACTGAAAGCCTTGGGGAATCCCACAGCTCTGTCACTTGACCATCACCTCCAGGCCTGCACTTGCAGAGCAGGCTCAGAGGTTTTCTAAGGATAGCAGCCAGGCCAGAGAACCCAAACAAGCAGAAGCTTTTAAAGATAGAACTTTTGCAGCTGGTGAGATGGCGCAGCCGAGAAGAGTGCTTGCCTCCAAACCTGACCTGATCTGACCCTCAGAATGCATACGGTGGAAAGAGAGCCAGCTCCCTCAGACTGTCCTCTGACCTCCATGTGGGAACTGTGGCACACACATCCGCATGCACACACCCCCAACCCATCAATTAATGCAAACAGTGTTTAGACATAAAACTTTTGGAGGGATGGGAGACGGCACAGTCGTAAAGTGCTTACCACGTAAACATGTTGACCTGAGTTTGGAGCCCAAGCACTCATCATAAAAGAAAAAATGGGTAAGTAGCTATGCATAGCAGCGTGTACCCGTGATCAGGATAAGAAAGGTTGACATAGGCAATTCTGGTTTCTTGTTGGTGAGATGGTCTAGCCACATTAGCAAGGTCCCAATGCCAGAGAAGACCCTACCTCTGGCCTGCATACATGACTCAAAAAATAAAATGTTATTTTTATATGTAAAGTCTAGAGATAGACAAAGGCTAGTGTGAGACTTCCTCAAGGATGCTTCTAACTCCCTTTTCTGCTGCTAACAACACAGACTCTACCCAGGGCTGCACAGTAGCTGCTGCCTCTCCAGTTACCATGGCTACATTTCAGACAAGGAAGAGCAGGCACAGAGTTGTCCTCTCTATTGAAGGAGGCGTCTTAGAGCCCCTCACAGAATTTCTCTTACAGTTAATTGGCCAGAGTTGATCAAGCTTCACAAGTTCTCCCCATGTCCACCCATGGCCAGTATGATTTCTTCTCCTAATTCACTGGCTCCCCAGATTGCAGGGTGCAAATCCTGAGTGACACCTCCTTCCTGGAACCTCCACATGCCCACTGGAGCAGGGTGTACCTGTTCTGTAAGGGCCAGGGACAAGTATTCCAAGCCCTTCCAGGCACAGACGTCCCATTGCACATTCCTTGTTTAGTGCTCTTATTGTTTGAGCCGTCCTACCTCGAGAGCGTTCTAGAAACAAGTCCCCGGCTAGTTTTGGCCTTCAGAATGTGGTTTACTATTTTTTTTAAAGATATATATATATATACTGTAGCTGTTTTCAGACACACCAGAAGAGAGCATCAGATCCCATTATAGATGGTTGTGAGCCACCACCCAGATAGAGCCACTGGGTAGCATCATCTTTGTGGGCAGCTTCAGCAGCGAGTAAATGTCTCCTTCTTCTTGAAACTTTGGGACTTTGGTTTATTTAAAATCTTATTTTTATTTATATGTGTGTGCCTACTTGTCTATATGTGTGCCACATGTGTGCAGGGCCCACAGAACCCAGAGCAGTTATCAGATACCCTGGAGTTAGAGTTAGAAGCAAGTCGTAAGCTGCCCTGTGTGGGTACTGGGACCCAGACCTCATCCTCTGCAAGAGCACCCAGGGCGCTTGACTGCTGCGCGTCTCTCTGGCCTCACTTCGTCCACTTAAAGTTTTTAAAATTTATCCTAGAGTTGTTACTCCTAAAAGGTGGCAGTGTAGAATTAGTCAAAGGCACCCTCGTGGTGCTGCTTAGGGTGCCCCTCTGCCCTCTGAATGCCTGTGAAGCTGGAGGCCAGAGCCCTCTCAGTATGTTGGTGAAAGAAAGAAGCTTCTAGATAGCACTGTGCTCCCAAGAAAGGTGCCCCCTTGGTGCGGGCATTATTGCTGATTGTGACTGCTGTGCCCAGAGTTGTCAGACTATGATGTATAAGAAGATGGCTTCTGCCAGTTCTCCATCAACAGCCAGAATGAATCAGAAGCTTCCCCTTGAGGTTGTTATACAAAGCTTGTCACTTCCTTATATACACCGTTTTCAAAATTAGGAGTGCTTCCTAGCATCCTCTGCCCTGTGCTTCTAGTTTTGAAGTGTTATATAGCTCAGGCCAGGTGGTATTGGCATGCACCTTTGATCCTAGCACTCAGGAGGCAGAGGCAGTTGAATCTCTGAGTTTGAGGCCAGCCTGATCTACAGAGTGAGTTCCAGGGCAGCCAGGGCTACACAAAAACTTTAAAAACTCAAAAAAACTTTAAAATAAAAAAGTTATGCAGTATTCTAGCTAGTGCTGCTTCCCAACCATCCCGGTTACAGGATATCACTGATGTCCTCTGGTTTAGGCCCGTGCAAGCAATGCCAGTCGTTCTTCAGACAATTTTTACCTATCTCCATCTGTGCCATGCGCGTCAAGCCGTGTGCTGCTTGGCTGCGTGTGCAAGTGAGAGCATCCTTCCACTGGCCAATTCTTACTGACACTCTAGATGTTCTCTTCTTTACAAGTCACTCTGGGACTGTGTGTGGTGGCAGAGGGAGAGAGTTGGAGGCCAGCCTGGTCTACATAGAAAGGTCTAGGACAGCCAGGACTACATAGAGACCTTGTCTCAAAAACACACACACAAAAAAAAACAAAGTCACCCTGGGGCTAGACATTCCTGTGATCATGTCCTATAGCTCCTGTCACAGGCGTGTGTTCCTCCCGTCACACTAGACCTGACCCTCTTCCACAGTATGTGAAGAACTAGAGGGTGGCACTGAGCCTTGATATGTAGCTGCAGACGTCTGTGCCCTGGCAGTGTACCCAAAGAGTAGGGTCAGAGAGTAAGGGGGTGATGGATGGGGTCTGGGCTGCAGCTGTGGCACTTCCAGTGGAGTGGTCCCCACTGTGAGAACCCAGGGAACCCTACTTACCATGCTGTCCTTGGGGTTCTTTGTGCCAGGACTATCACAGCAGTGTGGGCCCTTCTGCCAGGCAGGTCTTTGTATCATTTCAGGAGAAAGAGGAGAGGAAGCGAGGACCAAGACATTCAAATTCAGAGCTGTGTGTCGATTGTCGTCAGTATGAACAGTGTCGGATGGAGCTTCGCCTTCTTAGGGAGAACAGTCTCCACATGTTCTTACTTTTGAAAACTGATTTTCAAAGAACTGAACGTTGGCAGAAGAGTTCTAACTGACCTTACAACATGAGGCTTTAACAATTAACTCTGTCTTTGAGAAACCCTGCCTTTCAGAGATTTGACTTCCACAAGGTACTGGGCCCTGGTTTACTCACAAGCGGTGAGCACTCAATGAGACCAGGGTATCGGAAGTACCTAGATGGAAGAGGTTTCTGGAGTCTTCTGTGTGTGATCATTAAAACAAGTTAAGACCAAAGCCCTTCTGTTTGGGCAGGAAGGTTGGCAGAGAAAGAAAAGCTGCCCGCCCCTTTCCCAGCCTCCACTGTGTCATAATGTGGTCTTGGAATTTCAGGGCACAATTGCAAGTGTGTGCTTGTCATCCCAGGATGCATAGCTATCTACTGTTCATTAGTTGAAGTCACAGCTACCATTCCAGGAGGACAGCATCTCTCCCTGCCTGCTCCCACGTCAGGAGGGACTGGAATTTGCTCTGTGTCAGCAGATACAAATGTGTAGGCTTCTCTGGATTCCTTTATCCTCCTTGATGGAGTAAGTTTGGCTTAGCATGCTTCATGTGTCTGCATTCCCAGCACTCATGATGCTGAAGCAGAAAGATGAGAATTCAAGGCCTTGAGTCACTTGGGTCTGACACTTTGATCCTAGCCAAGGCTATGGGGGCTTTAAGGGAACTGCCTTGACCACTCCTGCACGCTCCTCCAGGTAGTGAGTACGGAAGCAGCCCCCCTCCAGCTGGTTTCCCTTTGCATCCCTCTCACACTTGGGCTCTGAGTCCTGACAACAAGTAGAAGGCCCCTTCTGGGCTAGCCTAAGCCTCCCGAGGATCTTACGTCCCACATGGCTCCAAGAACAGAATGGGGTGAGCGTGGATCTGATTCCATGGACATCCCTCGCATGGTTTGGGGAAGGCAATTTTCTTAGAATTAATCTGCCCATTTTTTAAAATTTAGAGATACAATTAAAAAAATAGATTAAAAAAAAAAAAAAACACAGACAGGGGTTTTGATCTTGTTTCCAAAATTTACAGTGTACCCCAACAAAGCAGGTAGGGCTTTTCTGCACCCTGTATTCCTAGAATTCCACAATCTTTCCATGCTGTCGCTGTGGCCTGTGTTCCTGCTGTGACTTTATTCTTACCGACTTCAGAATGGCCCCTTGACAGGTCTGTCACATCGGCACACTTGGTACTTGTAGTGAGTGTTTAACCGTGGGCTTTTGAGCAGGCTCATCTTACCTGTGGTGACATCCTCCATAGTTGAATTTTTGCATCCATCCATGACACTTTCCTCCTAACAGGTACTTGAGGCTTTTGATACTTGCCAATAGGTCATCCACGGACCATTCCTGTTACCCCAAGGATACCCCATTCTCACTGCTGTCGTCCTGCCCTACCCCACCTGTGTCTGCAAGTTTTATTTTGTTGCCATCAAACTTGAGTAGCTCTCGTGCTCATAACACCCTTCACATCTGCAAAACTCCTCTTTAATAATGTTTCTTTTTGTATGTATATCTTTTTTCATAGTTTTTATGTTGTCAAAGAAACTGCTTTGGGAAATGCTAGTTCTTAGCCTCTGGTCAGGGAGGTTAGGTACCCACCTCTGCATCCTCAGAGGTAATATGTGCTCTTCCCTCAAGCACCCAGACCATCAGCCACAGCCATCAGCAAAGAGCAGTGAGGAGGTCATGTGTAGGAGGTTTGTGTATAGCAGAACACTGATCAGTAGTAAAAAAGAGCCAACCTGGGCTCCCAAACAAGGTGGATTGCTAAGGCCAGGGCGGCGGGGGGGGGGGGGGGGTAGCCTAGAAGAGAATGTTGGTTGCCAAGGGCAGCAGGAGAATGAGGGGACTGTGCAGGTACAGAATTTCTGTCCTAAAGTTGGGTTAAGGACCGCACATGTATTCACACACTTAGAGTAGGGGAATGTCATGGTATATGAATTCTGCCTCCACAACACTTTTGAAAGATGAAGCTGCAGTGAGGGTTCATTCTGTAACATACTTCCCACAGGCGTGTGGCCGCAGTTGTAATCCCAGCACTAGGGACTCAAGAGACAGATGGGTCCCTAGAACACTCAGGCCAGCTAGCCTCACCACTCAGTGATCTTCAGATGCTAGTAAGAGACCCTGTCCAAAAAGACACATGTGAGCACACAGCCATGAATGTGTGTCACACACACACACACACACACACACACACACACACACACACACACACACAGAGCAGGTTCATTTCTATGGAGTCCATGGGACAGCCACTGTAACTCATGGCACTGCAAGTGTCCACACTAAAGGCCCATGTATGCCATCCTGGGAGCCCACAGCCATCCAGAGCAGAAAGTACAGAGTGATGGGACAGCGGAAGAGAAGAACAGGGATGAGAGTGGTCCTTACACCCCAGGTGCTGTCTACACTGTGGAGCATAGCGTGCACCCAGGAAAAATCGTTACAGTGGTCTGGAATGGTAGTACATGCCTTTAATCTCAGCACTTGTACATTAAGAGACCCTGTCTCAAAAAAAGCCGTGGGACAGATAAATGTGTCCCAGCTGAGCAACTGTGCCCCACTCTGCCCTCCCCTGCTGTTTTCAAGGTACCATTTCTTTTTCTTTCAAAGCCATTTCTCTGTTTTGCGAAGGTCACATGACCTTCACTCTAAGTCCATTGACAAGGAAGGCTCCCAGCCAGTCCTGTGAGCCTCAGTTCCTGTCTCAACCAAGCCAGTGCACTTTGGGAAAACATTAAAAGCCAGAAGCTAGATGTGTGTCATTGTGCATAACATGACAGCTTTACGGAATCAAAAATGCCTGCCACCCTCCCCAGACTGCACAGAATACAAGTTTCTGTGGTCTGTTTGTCTTAGCACCTGGACCTGCCATCTCCCCTTTCAAGAGGAAGCATGTGATGCAGGTAGAACTGCAGTGGGCTGGGCTGCTAGGGTGTTTTTAGATGGCAAGAGGCATGGTAGGGACTGTGCAGACTACCCTGTGTGGGCAATGTGGGGACACAACATGGCACTTGGAAGCTCTGCCTCTTGCTAGAAGTACAGTGGTGTCACCCCCTCTTCCTTCTCCCTCACAG
Seq C2 exon
GAACTGGTGAGGCTAACCATTGAGAAGCAAGGCCGGCCATCACCAACAAGCCCAGTGAAGCCCAGTTCCCCAGCCAGCAAGCCTGATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014316:ENSRNOT00000060977:5
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
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]