DreINT0173545 @ danRer10
Intron Retention
Gene
ENSDARG00000044718 | vav2
Description
vav 2 guanine nucleotide exchange factor [Source:ZFIN;Acc:ZDB-GENE-091204-420]
Coordinates
chr21:17992905-17994621:-
Coord C1 exon
chr21:17994534-17994621
Coord A exon
chr21:17993029-17994533
Coord C2 exon
chr21:17992905-17993028
Length
1505 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGA
5' ss Score
8.85
3' ss Seq
ACTTTTGATACGTGTAACAGGAG
3' ss Score
4.18
Exon sequences
Seq C1 exon
GTTTAATGATGAAGTGAAGCACATTAAAGTTATTGAGAAAGACAACTGGATTCACATCACAGAGGCCAAGAAGTTTGAAAGCCTCTTG
Seq A exon
GTAAGAGAAGCCTCTCACAGTCAATATCATTAATATCATTAAGGAGTTTTATTAAGTTGCACAGTGAAGACTGCACTCAAAAAAACAACTTGCAATTAATTCACTTGGATCAATTGCTTAACATACTAATTTATTGCCAAAATATTTTGTTTAATGTACAAAAAGTGACCAAAAAGGCAAGTAATCTTAGAATTTCTATTTCTAATAAATGTTAATGTTTCTATTAACATAAGATTTTATTTTAAACTATCACCATTTTAAAAAAAGCAAAACAGATATCAATATCAAGCGTAACTCTTTTAAACAGGGTGTCCGCGGGGTCTTAAAAAGTCTTAAATATTCAATAATAAAATGTTTGGCCTTAAAGTCTTAAATTCACATTGAGTTTATGTCTTAAATCATTTTAAACTGGTTAATTTTAAAAGTCTCCAATCACCAAAAATAACAAGTTTTTTTATATCAATACTTTAGTTTTTTATTGCAAAGTGATTCACAACAGCTGTTAAACATTTTTACAGCAAATTCTCTTAATTAAATTCCCTAACCAAGAATTACACAATTCCTCATGATAATAACAGCAATACATTCCTTTACATGATCTTCCATTTACACAAAACCTATTCACAGAAGTAAGGGTGAGTGGACATAATATTTATAAATAGGCATGAAGCATAAGGTTTTGTAACAGACACGCATTTGGTTGAATAGGAGTTATAATTAATTAATTTGGACAAAAAAGAAAACAAATACATATTTTTGTAATTTTATTCATAATAATTATACTTTTAACATTGCTAAACTTGTCATTAAAAAAGAAATGTTGGAAAAAAGTGAATACAACTATACTAACTAGACACATTAAAGTATGTGGTTAATTAGATTTTTTCCCCCAATTCCTCTGGCCCAACCGGTCTATTACAACAAATCCTTAGTGTTTAGCTCTGTGTAAGTAACTGTATAAGCTCTGTAAAACTGTTTAGCTCTGTATAACTTACATTTGTATTAATGAAACCTGCAGAAACCCTGTTTAAAAATTGAGTAATAAGAAATGTTACTGAATAATCGTGATGTTCTGAATGGCTGTTGAACATTAAGTTTTACCATCACTGAAATAACTAAAGAAAATTGTTTCAAAAACATGAACACCTACATATACCTTACTTTGAATGGTAATTCAGTAGACTATAAGTCAAATTCTTTTCCATGTTATTGTAAAATTTGCATTCTAAATTATGCTGTTTGTCTGCTTTTTTATCCAATTGTTCATCTTTAAAGCCATATGCTGCACATCTGCCAGAAAACGAGATGAGTGATGCTAATGCGGCTCTTAATTTGCATTTCATTTGCACAGAACTAAAGCCTAATCCAAGCCTACCTAAAACTGTAACTATTTTCCTGGCTAGGACAGATATTTCTACCGAAAATGGAGTTTTAGTTTCTGCAGTACATTGATAAAGGTAATAACAGCTGGAACATGAAACTGAAACTTTTGATACGTGTAACAG
Seq C2 exon
GAGCTTGTGGAGTATTATCAGAGTCATTCACTGAAGGAGAGTTTTAAGCTGTTGGACACAACATTACGGTACCCTTACAAATCCCGGGAACGCTCAAGCTCTCGCACCAATACCCGCTCACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000044718:ENSDART00000143987:19
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=0.238
Domain overlap (PFAM):
C1:
PF0001719=SH2=FE(38.7=100)
A:
NA
C2:
PF0001719=SH2=PD(6.7=11.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGATGAAGTGAAGCACATTAAAGT
R:
CTGGTGAGCGGGTATTGGTG
Band lengths:
206-1711
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]