RnoINT0124223 @ rn6
Intron Retention
Gene
ENSRNOG00000059961 | Rapgef3
Description
Rap guanine nucleotide exchange factor 3 [Source:RGD Symbol;Acc:621869]
Coordinates
chr7:139248463-139254149:-
Coord C1 exon
chr7:139253908-139254149
Coord A exon
chr7:139248517-139253907
Coord C2 exon
chr7:139248463-139248516
Length
5391 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
ACTCTCCCTACTGTCCTCAGACG
3' ss Score
8.23
Exon sequences
Seq C1 exon
GGCTGTCCACTTTCCTCCCCCCATCACAGGTCAGCTGGCCAGGTGAGAACCACTGGCAGGTGGGCCCAGCTGTGGTGGAGAGTCCAGCTGTGGGGGCACCGCAGGTGGGAGGTCTCCCGGACGTGGTTCCGGAGGGCACGCTGCTCAATATGGTGCTGAAGAGAATGCACCGTCCCCGGTGCTGCTCTTACCAGCTAGTGTTCGAGCACCGGCGCCCAAGCTGCATCCAGGGACTTCGCTGG
Seq A exon
GTGAGTACCGGCCATCTGCCAGGGTGGGTCAGGGCTGGAAGAGTCTGGACTGTAGTGCTGGCGGGTCAGGCAGCTTTCTCCAGGACAAATACATCTGGATGGATAGAAGGCAGGGAAGTTTGGTGGCAGAGTGTGTGTGGCTGCTCACACAATGAGCCTGTGTGCCCCGTGTGCACGTCGTGCTGCGTGCGCTGCCCCATTCAGCCACCGGTGGGCGAGCAAGAAAGGGCTTTATCATTTACCCATCACCTCCGTGTGCCAGGCGTGGACTTACATGTTGTGAGTTCTTTCTGTGAGGCAGTGGGAGATGTGGGGCCAGGTCAAGTGGGGGTGAAATTAGCTTGGTTACTGTTCTTGACACATCACCGTGGCAACGGTCTCCTTTAGTGAACAATTGAACTGGGCTGAATCTGTTTTTTGGCTCCTAGGGTGAGGTATTTGTGTGAATAAAGCTTGGCACCTGGCCACCGGGGGACTGAAGAGGTTTCAGGGCGGAGAACGACTGCTGAAGGAAGCCAGTGAGAAGGACAGGGGCTAGGGAGGGGGAAAGGCAGGAACCTGGCTCCTGGAATCCTTTTCCCCAACTACCAGGCTCAACAGTCCTGTCTGTATGCTCCGCTCTCTCTCCCTCCCCCGCACCCCCCCCCCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTAGGGGCAAAGAGTACTGAGTGGAGGGTGGGGAGAGAACAGGAATGGGTGACAATCTTGGAAAGGATCATCTTTCACCAGCAAGTCTTTTTGAGTAAAAACATATCAGCACTGATTGTTTCCTTTTCCTATCTTGTCCAGATACTATTTCCATTTCTAATAGAGGAGTCTGGGTTGAGAAAGCCCCAGGTGGGTCTAAAGAAGGAGACCCTTGGCACTGGAGTGGAGCCCCTGCTTGCCCCTCTCTCCCTGGGTCTTTCTAATAGGGGTTGGGGGTGGGAGGAGACTCGTCCTACCCCTCATCCCTACTCAGGCTCCGGGTCACTGTGGTAGTTCCTGCTGGGATCTAGCCGGCTGGAACCCGCCCTCCTTTTCAAGGCTGCAATTACTTGTGAGCTTCCTGTCCCTCCCAGGCTTGGAGAAGCTAGGTAGGGGGTGGGAGAAGGTCAGTTACCAGGACAATGAGGTCACTGGGGAATCTCTTGGGATCTTAAGTTGGAGAGGGTGGAGAAGTCCTCTCCAGTCTCTTTCTCCCCTAAGACCTCAGAAAGGAAGGACCAGATTGTACGGGAAGCTGGACACATGAAGGTTGGGACTGTTGGAGTGTGAAGGGGGTCAAAGGTCTGGAAGCAAAGCCCTCCTCTGCCAGATATGGGGGCAATGTGCTTAGGTTTCTAGGAATAACGTATTTGGCTTTTAGGGCTAGAGACCACTGTTCCCCATCTTTCTACCATGCCCCTCCTGATGGGTGGAGCAAGATAGATTGAACCTTTTGTGCCTGTGCTTCGGAAGCTCTCTGACCCCCTTGGAGGCTGCATGTCTTGGCTCTTTTTTTTTTTTTTTTTTTTTTTTTGGTTCTTTTTTTCCGGAGCTGGGGACCGAACCCAAGGCCTTGCGCTTCCTAGGCAAGCGCTCTACCACTGAGCTAAATCCCCAACCCCATGTCTTGGCTCTCTTATGGCTCATTAGATTCATGAAGTGTTCCTGTGAGGCAGCAAGTGCCAGCAGGGCATGTGCATGCACGGGGTGAAGAGGGTGAACCAGAGTCCAGGAAGGCAGGCCTGGGCAGTTTAGGCTACACCTCCCTCTTTAGAAAACCCAGGGGAAAGTGGGTTCACCTTCTGAAGAAGATTTAGTTCATCAGAGACCAGGACAAGAGAAAAAGAAGGCAGGGTAGCTCAGGGGGGTGGGGGTGGGGCTCGCAGCCAGATGTAGAGAGGACTTTCTGACTATGGCTAAGGCAGTATAGCAATGGGGCGAAAACAGCTTTGAAAAAGATGTGGGAGAGATGAGGTCTTGTACTATATGTGGGAACAAAAAAGGCTCAGGGTGACCTTGGCTGGCCCCACAGGTGCAAACAAGACTGGACAGTTTGGGGGGGGGGAGTGTTTCTAATCTCCAAATCAAATCCGTCCAAATGATGGCAGTGGCTAAGAGTCACAGTACTTGTGTCCCGTGCCTTATGACAGCTTCATCTTTGTCATACTAAATATGCTCACAACAGCCTGGTGGGACCAGTCCCAGTGGTTTCATCTTCCAGATGTGAAGAGGGAGGCACAGAGAGGTCAAGCAGCTGGTGAAGGGCTGCACAGCTGCTGAGTGGCTGAGCTGCGTTTTATACCCAAGATCTACCTGCAGAATACCTCCGACACCCTCGTGTCCCTGCTCCATGCACAACCTGGCCTAGGACCTTAGCCATGACCGAAGGAACTGGTCTGGTGGGTCCCTGCACCGTCCCCGACTCTCCCTGCAGCCAAACTCTGACACTTAGTGACAGGGAACGAGGGTGGGGCTGGCTATCTGGCTAATGCCAGCATATCCTCTTTTACCTGGGCTCCTTCCTGTCCCAGGCTAAGAAGAGGTCGTAGGGGAAGGCTGAGCCAACTGAGAACCTCAAAATGATACTCAGGGCCATGAGACCAAGTCCAGGGCCAGCCACGGCCCATATGTCAAGGTAGTAGGTACACATAAGAAATAAGAAAGTAGTGAGGTGTGGTGGCGCACACCTTTAATCCCAACACTCAAGAGGCAGAGGCAGGTAGATCTCTGAGTTCCAGGCCAGCCTGATCTACAGAGTGAGTTCCAGGACAGCCAGGGCTTTGCAGAGAAACCCGGTCCTGAAAAACCAACACCCCCCCCCCCAAAATAAACCAACATGAAGGCTCAGTTACTGCACTAGCATTTGCCAAGCAGTGTGGGCAGGCACCATTCCATGGGCTTCCGATTATTACACTATTTAATGATATGATAATGACCCGCGGGAGTAGGTACTATTATTATCAATCCCCTTCTCAGACAAGAAGCTTGTGCACAGAGAGCTTAAATCAGGGTAAGGTTACACATCCTGGCTGCCATTCAGAAACCAGCATTGGAACACAGGCATCTGGAGGCCATACACACACGCCCACTGCTGCTCATTCATGGTCCTCTCCCTGCCTGTCCCCAAGGTTTTCATTCACATGAGCATTATGAGGGTCCCCGGCTCTGCCTGTACAATGTTCCCCAGGGCACAATGCTCTGCTATTTCTGTGGCTGTGGCTTGCAGTGAGGAAGTGAGAACAGGGTTGAACTCCTGAGAGGCGGTAGGGCTGAAAGCATCGCTTGTGGAGTCAGACAGTTCCAGTGTGAGTGCTGTTTACCACCTGTTAGGTGGGTTATGTAACTGTAACCTTTTTTTCCCCCTTCTTTCTTTCTGGCTTAGAAATGGGATCCAGACACCTGCTTCACACAGAGGCAGCACCTAGAACCTTGCCTTTCTCAGCAACTATGTAACCCTAGGCAGTGAATTTGTCTCCCTTGGCTTCCGCTTTCTTTAGCAAAGTAAAAGGCCCTATGGTTGCCTTCTCAGGCTACTGTTCTCAGACTCCTGTGCCCAGCCCTTGGGGTAGGTAGGGCAGGAAGTGACCGGCTTGATCGTATGGCCCAGGTCAGGATAATTCCAGGCAGGGTGGGCTCAGTTGGTAGAGTGCTCGATTAACATGCATGGAGTCCTGTGTAGTGATCAGGAGTTCAAGGTCATCCTCGGATACTTAGAGACTCTAGCCTGGACTGCATGAGACCTTAACTCCAAAAAAAGTGACTGGAGACGGCTCTGTGGATAAGAATATTTGCCACCTTGCAGAAGGCCTGAATTTGGCTCCCAGCAACCCAGCAACAGTGTCCCAGCTACCTATAACTCCAGTTCCAGGGAATCTAATCCTCCTCTATTGTCTATGAGTACACATGCACACATGCGCGCACACACACACACACACACACACACACGCACGCACGCACACACACACAAATAAATCTAACAACAATAATAACAAAGCCCAGCCAGAGCCTGGGCTGTGGCCACCAAAGGGAGCTGGGACAGGAGCTAGGGTGACTTGGGCATTTTGACATGAATAACAAGAAGTCATTAGCACTCGGGCACTGTTTGTTCCAACACAGGGCCTGGATGGAGACATTCCTGCTCTTCCTCCCTTCCTGGCTCCTCCTCCTCCTCCTCATTTCCTGTCCTTGAGTCTCTAGGGCTGTGTGTCTGGCACTGGACTGGGCCAGTGGCCCTGGCAGGGATACCCTTGGGACACCTAGTGACTTCTACCCCATGCTAGGCAGGCACTCATGTCAGACCTCGAGTCTCTGCCTGGATAGAGTGAAAACATTGCCTGTGCTTAGGACCTGCCAGTCTCAGAGAGAGGACTTGGATCCCAGAGCTGCCAATACTTCTCCAGGTCCTTGAGTGTAGGGAGATGTGGTGGGTGGGGTGGGACTGGAAATGAGACTGCCTTGGGTGGGAGTTCCGGTTTACCCACAGCTGGTTAACAATCCTGCGCATGTGTGGTTGAATTATGCAGGGCCCTTGAATTCACATCAAGACTTGTTTCCCTGAAAGTCGTAAGGGAACACATCATCTCTGCCTACCGCACCTCATGGAAGGTGGATGTGCTCTGTGAGCTGTAAGGATGCCTTGGGAGGGCTTGTAGGGAACAGAGCAGCCTGCCCAGAGCTGTTCATAAAAATCTCCATTTTCAGATGGTTGGAAAAAGGGGTTGTGAGAGGCCTTCATGGCTGATATGCAGGGCACATTTGCCTAGGAGTCCCTGGTGGCGACATTGCTACCGAGGGCATCATTATGGTAAGCCACTTATGGGCTTCCAAAGCCTTATCCACTCTTACAGGGATGTGGCTTGCAGTGGCTTGCTGCTAGAAAGAGACAAGCCTGAGTCTGTGCCAACTCGTCCCCACGAGTTGCCCTCTTAGTTATGGTTTAGAGATTTTGGACACAGAGATATTGTTCAGGGTAACACCATTAGTACAGAGCCTGGCTCCAGAATTTGTGTTTCTGTTAACTGAGCCACAGCCCTACAGAGGGAGGACCCTGTAGTTGGGCACAGACCTGAGCCTGAGGTCAACCTGTAGTCCCAGCAGGGAGCTTGTTTTCCCAGGCCTGCCACGATGTTTGTGCCCTGGCCTCTCATGAGTCTTGTATCACACCTTCCAACGTCCTCTAGCTCCACCCGGACCAGCCACACGCGGGGCCTGTTAGCCTGGCAGCCTGAGCAGTGTGGACCCCGTGTGCACAGAAGAGGGATCTTGGGGCTCTCACCTGCAGCACACTGGTGTGGGAAAAGATGTCTACTGAGAGGGGCGGGAGGGGTCCCACTCCGTGAGTTTGAAGGCCTCCCACTGATCTGCAAACTCTCCCTACTGTCCTCAG
Seq C2 exon
ACGCCACTTACCAACAGTGAGGGCTCCCTGGACTTCAGAGTGAGCCTGGAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000059961:ENSRNOT00000078644:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.012 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
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]