RnoINT0162685 @ rn6
Intron Retention
Gene
ENSRNOG00000020485 | Vav3
Description
vav guanine nucleotide exchange factor 3 [Source:RGD Symbol;Acc:1565941]
Coordinates
chr2:212398610-212403475:+
Coord C1 exon
chr2:212398610-212398675
Coord A exon
chr2:212398676-212403366
Coord C2 exon
chr2:212403367-212403475
Length
4691 bp
Sequences
Splice sites
5' ss Seq
AGAGTATGT
5' ss Score
5.66
3' ss Seq
TACCGCGTTCCTTGTTTCAGTGA
3' ss Score
8.81
Exon sequences
Seq C1 exon
GCCATTCCCCACGGAAGAAAGTGTAAATGATGAAGACATCTACAAAGGCCTTCCTGACCTGATAGA
Seq A exon
GTATGTGGGGCATTTTCAATACAATTAAGCCACTGTGCTATTGTTACTCAGCATGGATGAGAACTATAGCAAGCTCTCTGCAGGGCGAAAGTGAGGCAGGATAAGAATTATCTACCCTTAAAATGATGACGGAAAGTTTCACAAGAAATCTCCTTCAACTGGCTTTTAGTTCTCTGTGCTGTGTGGCCATGAAGAGAAACTTAGTGCAGGGAAGTAAAATCTTGAAGTTTCTCAAGGGCATAATACAGACGTAGATAAGACTGGAATTACACAATTAGGGAATACTAAAAAAAAAAAAAAAAGAAGTAACGTTTACTATGGAGTCATAGGACAGAACGTGCATGCATTTCAGTCGGCACCAGGAAGGATGGCTGCAGCTGGAGTTGTTCGTGTAAATGTCGGTAGATGGAGCTTACCCTGAGCAGAGGCTCCTCGGGGCTTTATTACTCAATAGTCAGGAGAGGCAGACGGTCTTGCAGCTGATTATCCTCCGCTGATTGAGTGGCGTATGCAGCTTATGAATGAATATCAAGCATGATCCCCTCTCCTCAGAGACCTTATGACATAGATCAGGTGTGTTTGCACAGAATTGTAAGAGACGGATTACCCTCCAAGGGCAATTCCTGGAATCTGTGGGTAGCCACAGTCCAGCACTAGCTGTTTTATTTGCTTGTATTACTGGCCCCTCAACGGTCTTTCTTAGGCATCCCTTCACAGAGAGACCTTTCTTGGGGAAAATAGCCATCACGACCTCACACTATGTTTTTAATCTTTATTTCTGGCTAAGGTTGGCTCCCTAGGCTTACTGCCTGTGTCTTCATTCCAAGGCACAGGAACTTGGTGCATGTCTGCATTCTTGGAACTTTAAACTGTAGTGAGCTGGAGAGATGGCTCAATGGTCTGGCAAAAGGTAGCTGGGCAGGCAAAAGGATCTGAGTTTGGATCCCCAGAATCCCTTTGAGGTAGTAGTAGTTAGGCATAGCTGCTTGCCTGCGATTCTAACCTTGGAAAGCAGAGACAGAAGGTTCCTCTAGGCAACCTGGAACATGAGACTAACCAGATGGCTGAGCTCTGGATTTGATCGAGAGGCCCTGCCTCGATGAAAAAGGTGGAGGAGCAATAAAAGGAAATCCCAGACATCAACCTCACCTGCATATACTCACCTGCACACATGTGCCCACATAGGTACACACTCACACATGCAAACTATATTCCATACACCTATACATGAAAAAGGAGAAAAATAAGCGACTAAGCTGTGTCTGATGTATGTATATAAGTAAGCCAAAAGAACATTGGACATCTACTGTTTGCCCGGCACTGCGTGCTAGGGTTGGGCTATCTAATCGTTCAATAGTGAGAGTGTGCTGTGTGCTCATTTGTGTGCTAATGTGTTCTGTGTGTCATCTCATGTGTTAAGTACCCGCTGTTATCATCTATGTGGAAAAAATAATTGTACACAAAACTAACGTGTTAGAGATAACATCCCAGAGAGTAGTCTTTGAATCCAGATGTTTCAGACCCTGGAGTGAGAGGCTCTTAATCACTGTCCTGGGACCAGATGTGTGGTGACTTAGTGCTCTGAGAACTCCCAGCCATAGCAATGGGCGGCCAGCAGCCTTTTCTATTTTATGTGGCATTTGGAGTGGCGTTGAAGTCATATATTTTAAATGTCCTTTGAGGATAGTTTCTTACTGCTTCTAAACTTCCAGGAACTCACTGCCATTAGGTAAGATGGATGCCGATTATCTGATTAATTTGGAAATGGACTTTTATAAAATAACTGTAAGGTTACTGGTCTTGTAACCAGATTCCTAGGAAGAGCATAATCTGTACAGAGCCGTGATAATGTGGTCGCTGAACCCCGTTGATGGTCACTGACGCCCATTACTTTTTTATAGCCTTTGCCCATCTTGTTCTGCTTAGTAGTGTTGGTGAGATTTAGTTTGAGGGAGCGTTAGGTATCAGGTAGGAGGAGGCTTTCAATCCAAAGTGTCAGGGATGGAAGCCACAGTCCACATGGCTTCTGACCAGGGCCCGGATCCAGCCTCTTCCTAAGTTTGGCTATTTCAGCTCGCTCCATGCTGATCTCAGCTGACTTCCCTACCCCCACACAAAACGGCCAGATACAAGACAACCAGGACTGCATAGAGAGACTCCATGCTCAACCCTCTCCCAAGACAATGAAACAAAGTGCTCAGACCTACCTAACTGTCCCACCCTTTCCTACCCCGAGTCCTCCAAATGCCCTGCTATGGAAATCAAAGAGCAGCCGCATGGCTTGACTCACGATGTTCAATTCAATGTTGAAAGGCATCTTCAATTCTTTCTCCTCTCTGCCTAATTCCAGACAGTCTCTGTATCTGATGTGATCCTGACTTTTCCTGGCTCCGCCTCAGCAGCCTTTACTCTTCTTATAGCTCTTAGGCTCCCAGTGTGTGACCTTTTGGCCCCTTACTCCCTCTGCCTGCGGTCCTCACACCCTCTCTCCTCTGTAAAGCCCCTGTTGGCTCGCAGATACCCCAGCTAAGGTTGAGTGCACCAAGCGCAGTGCTCTTCAGTTTTGTTTCAGCTCTTCCCTCCAGTGGTCCAGCCCCGAGGGGTTGTCAATCACAGCCTTCATGTTAGTGCTCTTTCAGGAACCCTGTCTCCCTCCTCATGTGATGTGTCTGCCTGCTATGCTGGTTGGTCCTGAAGTTCCATTAGGATAACAAAACCACATTTTTACAGCAGAAATTTACTGACCAAGCCTACATATTCCTAGTCCAGCTCAGCCATGGCACCTTTTTGAAACCTTCGGTCATTTTCTTTAGTTATTTTCACTCTTCCCTGCTCCTTTAACTCATTCATTTACCTTGTTACATATATAGAGTTATGTGTTTATGGGCTGTTCTCCATACAAGCCAAACTATGTGTGTTTGTGTGTTGCGTAGGACACACAGTGATGATGTGTATGTGCATTCATATGTGAGTATGGTGCATGGGTCCCGTCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGAGTTTGCAGTTTAGATAGCACACTTGCCACCTACATTATTTGAGACTACACACAACACTGTAGCTAGCCAGCCCACAGACTTCCAGGCATTCTCTTGTCTCTGGGTCCAATCTTACTGTGATTGCAGATGTGCTAACATGCTAAGCTTCATGCAGGTCCTGGGGATTCAAACTCAGTTCATCACTTTATTTGACTTCACACATTGGTCCAGATCCTCAGTGGGAGAGTTTTTGATCTATATGTCTTTACTCCTATAGAGCGTGGAATTCAGTCAGTTCTTTATAAATACCTGCTGGATGGATGAGCAGAAGGGTAGGTGGGTGGACAAGTACTTCTGAAGTGAATTTTTCTCAGAGCCTAGTTTTCTCAAGCTTCAGTTCCCTCCTTTTGCTTCAGAACCTTCCTTTTCTCTGGGTTTTGACAGTTCACTTCTGTCAAATGCCTCCACATAATCTTTCCTGACAAACACAAACAGCCTGTGATTGTACCAGCTTTGAAAAATGTTCCAAGTTGCAGAGTGATGCAGTCACAGTGTTTTTACTTTTGTTCATGGCAATTTGTAACATTCACCCAGTACAGGCTGAGGAGGGTGCTCAGGGCTGGCCACATTAAAGGGCTGAATTTCTTTCTCAGAGAGATTACTGTTTCATTGAAACTTGTCTGGATTGGTTAAGGCCATTCCTTAGGTTGTGTTAGGAGAAGGCATTTATAGATGCTTTGGACTAGGCAGGAAGACTGAAGAGTATGGCCATCATGAAATGAAGAATTGATTGTGACAATGGTTCCACAGGAAGGGGTTGGGGACAGTGCCCTGGTCAGCCATGGATTCACGAGCTCATGGGAGACTGGAAAGAACAAATATTTTCAAGAGACCACTATGCAGTATTTAATGACTTTAAAATATATTGTAAAGATTAATGTATCTGTCCTACCTTTAAAATAAATTCAGACAGTTAACACAGATCAAGACAGTTTAGTTATAGGAAGATGTATATATCTTCTAAATGGGCTTCTAGAAGCATGGTTTGAAAAGAACTGACTTGGTTTGAATAACCTTACAGCAGCTGATGCTGTTATCAAACAGATTTCTGCTATGCCAACTTTTCCTTACCTGTGCCCTCCCCACATTATGCCTTTAACAACATAATGAAACCGAGTCCATGGAATACTGCAATCGGGAGACAGAGCGATGCGGCTGTCAACATACTCAGTGTAAAACAAACTTGTGTTTTTAGATCGAGGCTCTGTCAGAGATGTAGACTAAGTTCTGCCTTTGACAAGTCTGGTAACTCTCTGGTCTTCCAAATTTGTCATTTTTTTCATAGTTCAAATACTAAACCATATCCATATGTTGTAAAATTAGAGCCGTGACTAACTTATAGCTTTATGAATGTAAATAGCCAGTAAGGTATGCATTAACATCGACCCAGTTGCTGGATTCTGCTGTTTGTCCCTGGGATAATGTGAAGAAACAGAGTTGTAATGGGAACCTCTGGGCAGTCTCTGCTAACTCCAGTTTCCTTCTCCTCTGAGTGTTCTGCTGAAGTCAGGGGGAAGATTTCAGTCTGTTGTGAACGGAAGCCTGTAGGCCATGTCTCAATGTAGCACCTACTGTGTGACAGAGCACAGCCTTTATACCGCGTTCCTTGTTTCAG
Seq C2 exon
TGAAACCCGTGTGGAGGACGAAGAAGACCTCTATGACTGTGTGTACGGGGAGGATGAAGGCGGAGAAGTCTATGAAGATTTGATGAAGGCGGAGGAGGCTCACCAAGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020485:ENSRNOT00000027813:4
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=0.135
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF143061=PUA_2=PU(26.7=54.1)
Main Inclusion Isoform:
NA
Other Inclusion 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]