RnoINT0162681 @ rn6
Intron Retention
Gene
ENSRNOG00000020485 | Vav3
Description
vav guanine nucleotide exchange factor 3 [Source:RGD Symbol;Acc:1565941]
Coordinates
chr2:212558612-212564749:+
Coord C1 exon
chr2:212558612-212558699
Coord A exon
chr2:212558700-212564619
Coord C2 exon
chr2:212564620-212564749
Length
5920 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGC
5' ss Score
8.27
3' ss Seq
TTTCATCTGCTCTCTTAAAGGAA
3' ss Score
9.4
Exon sequences
Seq C1 exon
GTACAATAATGAAGCAAAACACATCAAGATTTTAACAAGAGATGGCTTTTTTCACATTGCAGAAAATAGAAAATTTAAAAGCTTAATG
Seq A exon
GTGAGCATTGATTATTTCTTTTCAATCTATAATTCCCATTTTCTGCTGTTAGGTTAGTTTAACTCTACAGTTTCTTAGCGATGTTACCCATTGGAAATTATTTAAAGAGAATTATAGTGTGGGCTCTAGCAAAAGCCTAATTTTCTAGGTTGAAGAATTCCAGTAATGTTTTACATTGCTCAGATGATGTTGCTCATTGTACATGAGCTCATGTACATGTTTCAGGTAAAATTTTAGAGTCCACATTACTCATGACTTTCAGAGCAACTGCCAACTCAAGTATAATTGTCAGTTGTTTGTATGGGTGTTTGAGTCTCTTGTCTCAGTGGCAAATGGCAAAACTTTGTTACATCATTATGTCATTCCTCTTCTTGTGTCCTCTGTCTTTCCCTCCAGCTACCTTTTATCATGATCAATTATGACAAGGAAAGTTTTAATTAATAAAAATATCTCTTAAATTTAGGTCTATTTCATACAAGAGACTTAAGAAAGTAAATTTTTAATTTTCTTTGTATTGTCTGCTATTTTGAATTGTGTAATCATGGTTCTCATCTATCACATTAGACAACTGGGCATCAGTAAGTTTATATTTTGCCACAGACATTCATTGATATTACATAGACATATTGTGTTGAAATGAAAAACCTATCTCGAGGTGAGAATGTGGTGATCAATTCTGACAATTTGTAAATGTCTCAGTAACTTTCTCAGAAGGTATATTGTGTATATGTCTTACAGGCCACACACTACATTTCATTACACACACTGTTATCAGTACATCTTATTTTCCTAGGAGTGGCTTCAAATCTTCTTTTTCACCCAGGCATTCTTGAAGGAATGAGGAATTTGGACACAGGACACAGGATACATGTGTAGCAGTTAAGAACTTTGATTAGCTTTGAGAGCCAAGACCCAGTGATGAAGCTACAAATCAAATGATACATGCTACACCTTTCCTGAAAAATAACAGGAGTTATTATCACTTAGGAGTACAAATGAGTTAAAAATTGAGTATGAGAAGGCTTACAAACTCAGCCAGTTTGAATGCCCTACCTAAAATCCATTTTAAGGTAGGGACCAGTGTGCTAAAGAAATTGAAGCATCTTGAGTAGAGAGAAAAGGAAATAGGAAGAAATCTATAGACATAAATAGGACATTTGAAATTCAAAAGGAAAGGACAGGCAGTGTGGGTAGTCATGGAAAATGGAAACTCTTGTCAAACTGGTAACCAAGCTCCAGGAATCCTCCCTGCTAGAGGTAACTTACATTCTGTTGTATCTCCCGGGCCGTGAAAGAGAAGAGAGAATGAGCTAGACCAGAAGAGATTCTTCATATAATAAAAACCTGGGAAGGATGTGACAAGTGGGTGCACAGATAACGAGTGAGTGACAGGCACAGCCTGGACATGACGAAAGCATGCATGGGGCACTCCATCTCTGCAAGACATGCCAGCTGGAGCTCTTACCTGCAGAATTTTTTGGGGGATGGTAATGAGGCTTCCTCACAGTGTCATAGTTGATATGACACTTAAAAAACGCTGCAGGGCCAAAGACTACTGCCAGCCCTGCAGACATTGAAAAAGTCTGGAAAGAAACTCCTGTCGGAGAAGACACACAAGAGGGATGAAAGGACTGGCTACGGGAAGGGGCCAATCAGATCAGCTTTGTATCACCTTGGTCCAACCCATGGAAGTCCTATGGCAGGGAAGGATGGGGGTGAGAAAAGCCAGTGGCACCTCGTGGGCTATAGTCCTTTTATGGCCATGGCTATACTGAGGCTGACAAACACCCCAATTTAAATAATATGTAGCAGAGACCGTTCAAGTTTATCCATCGGTCTTCTGGAAAGGGAAGTAAAGACACATGTCTCAGAGTTCAGACAAGTGACACAAATGCTGTGTGTCACTCATGAATGCCACTGCTGGGGACACATATCATACATGTTATTCTTTTTCTTTATTTTTTTCTTCCACACCTGGAGATCTTTTATAGGGAAGCTCAGACCATAATAGTCCCAAAGAGGAGATGGAGAACTAAGAGCAAAACTGTGGAAACTAAAGAGAAAAGGAACCAACTTGAGGATATTTGTATAAATAAGGAAATGAGGACAAGGAACAGAAAGGCTTTAGTCATAGGCAAAGGCCTTTTGCCAGCTTTAGCAGATAACTACCAGTTGCTAAAGAAGCTGCTGAGCTAGCTGGAGTTTGCCCTGCTTTTTGTTCAGGTGTTGAATAAACTTATTGTGATCTTTATGTTTTAATTCTCGGAGATGTGTATTTAATAAATTCAATAAGCAGATAAGCAGTGCTATATCAAATTTGCATCCTATAGATTTTTAAGTTAAATGTTTATTTAGAATAAAAAAAATCTATTATTTTTTCCAAAAGGCAGACTTGGATGCTAATAAAATGGTTTAATAGAACGAGGCACAACGTTTAAGATAAAATTCACAAAGAAGAGTATGAATGTTTAATTACTTTGAATCTTAAAAGACTCGATCACTATAGTTTTAAGAGACTTCAAAATAAAAATGAATCAATTGATCTAAAATAGCTTACAAGTTAGGAAGTGCACATGTGCTTCAAGAGAATTCAAGGTCGTGGTGTCCTGCAGACCTAAGATAGAAAATGCATGTGGATTCTTGCCCAGAAGTGTTTCGTATTATGGTAACATACTTCTTTGGAAGAGGAGAGGAGGTTCCAAGATGTAGGCAGTGTCTTTAAAACCAATAAAGGTCTATGGCCTCTAGCAGACACAGCTTATCTTGTGTTATGTAGCCCAGTTCCCATCACAGTAAGTGCTAGTGTGCAGACTTATGCCATTTCTTACTGGTTCAGCATCTCACCAATCGCGCTCTCCACATCACATTATGTTCTTCTGCATACGAATCACCTTATAGCTTGGGATAAAATTTCTATCAGAAAGGATACAAAACAAGAAAAGACTCTAAAAGCTTATTTTTAAATTAGCTGGTGTCTCACAGAAAAGGCTGAATTTGATGCCTGGGACCAGAACTCCTTCCCTTGGGTTTCAATAGCTCGGTTAATCAAAGTCTTTGTTTTTCTTAGTCATTAAGTTCCAACCCTAAATGACTTTCTGATTCCAGATTACAAGGCATTAATTTTGTTCTGATTTTCATGTATGCCAGACAAGCTAGGTCCAAATGTTGTTTGTAAGCCATCTCCAGCGCCCGTTTCCTTGGTAATTGGAATGACTGGCCCACACTCATTATTTCTCGGGGTTGGATTGTTGACATCACTGTGTCGGCTGAGATAAGAGAAGCTTAGAGATTTCTTTTGTTTCCAGTCATCTTATTCGCTTGTTGTACCTGAAGGTCAATGACTGCTAAAGCGGGGGTGGATTAGACTAAAATACAGAGAGCACAAAGCCATGAATTGGAAGCAATCCACACTGGTGCTCCTTAATTCTACTCAGAAGCCTGTTAGGAAGATTTGCAGCCTAAGACTGTAAAAATGTAGCTAAAATACTTTCCATGCTTAGCCAGGTATTAAAGACCATCTGCGGTTTACTAAATTGCCTGACCCTGGTTCTTAGAAAAGTCTTTTTTTTTTCCTTCTGTAAAAATATTAAATGACCAACAAAACTTTTTTTTCTGTTCAATAATTCAATAGTGTATATCCAACTTCACATTAATCTTACTAAGGATTTGCAATTTATAAAATTCATATTCTCTCTCCTAAAGTGAAACTGAAATTCAAAGCTATTGAGCTGCACAATTTGTTTCAGATTTATATTTATGTTGTCAAAGAAAATAGCACATCTTTATTGAAGTGCTGAGACTTTGGTTATCGTTGGTATCAGTGATGCCCTAGGCAAACACAGAGTTTTCCTTAAGCTTTTTATTCTGTCATCAAAAAATAAAACGATTATATATTTCCACTAAGAACAGTTAAACTTCTGAGCTCCTCTTGGCAAATCATATTAAAAATAGGCATATTATGAATGCCATATTCTCATGTAAGTAGCCATTTCCTAGATACAGCGCTCTCTTTCGTGTTTTGTTTCCTTTGTTTCCTTTCCCCCTTTGGATGTTAGTCAGATTTCACACACCTTTGTTTGGTCAAGCATTCCCCTTCTCTGGGCTCAGAGAAGGTCTGTGAACTGTGTGGAGTGTTTTATGGCCTTCATTTTCCAAATGTGGGAATTGACAAAAAGAATCATTTGCTTTATCCAGTGATTCAGCTAAATAATACTGCTTTCTGTTTATTAATGTGTGACAGAATGTGTGTGTGTGTGCATATTAAAATGCATGTGCCCTTTGCACACATGCAAATATGCAGAGACCAGAGCATGATATCAGAGAATATTGTCTCCCTCTTTCTCCACCCTATTCACTCATAGACTCTGGAGCTAGGCTGGCAGCCAGCAAGTCCCAGTGTTCCTTCTGTCTCCTCTTCTCAATAGTTCAGGGGTTATAGAGACATATGTGGCTAAGACCTGATTCTTACGTGGGTGGTTGCAGTGTGAACCCAGGTCTTCACTCTCATGCTCTGTAACAATGGCTCCTATCTGCTGAGCTGTCTGCCCAGCCCACGCCTGGGATCTTTACTTTGCCACCTATGGGTCTCAGGTCTGGGTACCCCGAGCTGAAGTGATCTCTTCCCCATTGTTATCTATTGAGATTGTTGCCTGGTCTTTGGTTTAACCAAGCCACCTCCATCGCTCTATCTCTCCTAGCTTCCCAGTTGAACGCACTAAAGAAAGTTCTTTATGCACCTGAGGTCTTAGAACCCTCACTCTCCCATCTTCGATAAGAATCCTGGAGAGTGGGCACTGTGTCTTCGGCATTTTTCTGACCTCTGGCACTTCCAGCTCAAAGAAGTACTCGGCACATCTCAGTTAGACCGAAAGGAATAAATCATTGATAATCTGTTTTGTTTTTGTTTTTTTTTTTTCATGTTGTGAGTGAGTTTGGACCTGATTGATTTCTTAGGAAATTTGAACTTAACCACTGACTGTATGTGCTGGATCAATGAACAATGTTATCATCTCAAGAAATGAGGTGCTCTTGCACACATTTTTAGAGGGTGCTATGACAGAAGCATTGGCTACTTTGTTTAAAGTAATTTGTTTTTATTTTCATTTCATCTACTCATCAGGCACTTCATATCTGCCCCGTTTGGCTCCTGAGACCATTTCCATTATGAATTTGCCCATTTCAGTTCGTAGTTGAGGGATTCGGATATGTGTAGAATACGAAAGTAAGGTACTCGGAAAAAGGTTTTCCCTGAAGATTTAGTTTAAAATATGATAGATGTTTTTATGATGCTTTGAGATGTTCAAAGTATTTCTAAACAGCAGCTAGAAGGAACCACCTGGCTGCCCTTTGTGAATACTGGGTGACACTGAGAGCGGAGATCCACATGGCCCATTCACCAGTGTGAAACAGGCATGATAGTGAACACTGCTGAGTGCTTCATGAACCTTCTTTTCTTTTGTAGAAAAGTACATTTAGTATTAAGTTTGTTTTTCTGACTAGTTGAAAGCAAAATGGGGGAAAGTAGAAATTGCTATATAGTCAAACAACAGCTGTTCCTTTCTTTTTTTTTTTCTTCAGAGAGACACGTTTCTCACTAATAACAACAATAATTACTACTCTGAGATCGAAGTTTAGCATGGCTTCTTTTCAGCACGGCATCTGACTGAAGACAAACAGGATGTTCTGCATGCCTGAAGAACAATAGAAAATAACCAACATGAACCAACGAATCCAGTCAATAGGATAGCATCTTGGGGGAAGGGGTCAGGTACATTCAGACAGGAGGCAGAGCTCTTACACTTTCAGACATTTGGAACGTTAGGCTTAAGATGATTATCCTTGTATCATATATAATTTGGTATTAAAGGGTTTGTTTGAGAACAAAAATAACAAGATCTCTCTTTCATCTGCTCTCTTAAAG
Seq C2 exon
GAACTTGTGGAGTACTACAAGCACCATTCTCTTAAAGAAGGGTTCAGGACCTTAGATACGACGCTACAGTTTCCATACAAGGAGCCTGAACACGCATCTGGACAGAGGGGTAATAGAACAGGCAACAGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020485:ENSRNOT00000027813:24
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=0.273
Domain overlap (PFAM):
C1:
PF0063014=Filamin=PD(4.1=33.3),PF0001719=SH2=FE(38.7=100)
A:
NA
C2:
PF0001719=SH2=PD(6.7=11.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
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]