DreINT0124776 @ danRer10
Intron Retention
Gene
ENSDARG00000029372 | rasa4
Description
RAS p21 protein activator 4 [Source:ZFIN;Acc:ZDB-GENE-060526-349]
Coordinates
chr5:58696202-58698215:+
Coord C1 exon
chr5:58696202-58696394
Coord A exon
chr5:58696395-58698077
Coord C2 exon
chr5:58698078-58698215
Length
1683 bp
Sequences
Splice sites
5' ss Seq
CGGGTCAGT
5' ss Score
6.55
3' ss Seq
TTGTATTTTTCTTTCCTCAGAAG
3' ss Score
9.08
Exon sequences
Seq C1 exon
GTGTGCAGGTTTGCACCGTCAGCAGACAGAATCTGATGTTATTCAGCAGAGCTCCAGCCTCCTTCAGTCATACCTGTCTGAGCTTCTCACCTCCATCCTACAGTCTGCATCCTACTGCCCGCTGCTCATCTGCCAGGTTTTCCATCAGCTCTACCTGCGAGTGCAGGAGCGCTTCCCGGACCCAGAGTACCGG
Seq A exon
GTCAGTCACCTTCATTTTTACAGACCTTCTTTCTTCTTAAGGCCTGTAAAACCTGTCATTTTCACAGTGCTCTGTAAGAAAAATTGTGATTCATGTTATTATTCGTTTGTTCGTTTTTCCTGTTTATTTATACCTTGAAAAGTTCGAAAATGTGACTACTTTAATAGTTTAAAGTGATATATTGTCTGAGTTGGTATTGTATTATATGCTACAAAAACCTTGTACACCATACTACAAGTACATTTTCTGTTATTGTACAAAGTTATTTCTCTTAGTGACAATAATATAGAGTTTAGTACTTGTTTTAAACTCCTCACACAAGTGCTCATCAACATGAGTATTTATTGCTTTTTGTCCTGTTCAATAGTTTGTTGTTCTTTTGATTAGTTTCAGACTGTGAAACAATGGCGTTGTTGACACCTTGTGGACAAACTTGGTAGTGCACAATAATTCAAAGCATGTGTGAGCATTGTATGCCCACGTTGTCAAAGTATATCTTTGTGTAACTGTTGCAAAAACCGTTGCATTAAAATTTAAGTATAGTTTGGGCTTACAGTGAAGGAAATTAATTTATGCAAACTCAATAGTGTTTTTTTTCTCAATTGTGGGTCTTTTGTGCACCATTTTAAATGTAGACATTAAAGGGACAGTTCACAACAACCCTAAAAACAAATTCTGTCATAATTTGCTCACAGCTCATGTTGTAAATCTTGTAGGAGTTTCCTGCATCTGCATTTTTTTAATCCTGTTTTTGGTTTGTACAGTAAAAGTCGGTCGAGTCTTATCAGTGTTGCTGTTGAGCCCATTCGCTTTCAAAAAAACAAACAAAAATAAATTCTTCAAAATATCATGTTTTATATTCTGCAAATAAAAACATAGGTTTGATTGAATCAAACAGATCTTTAAAAAAATTTACTGTTTTTTGATTCATAAATAAATCCATGTTTTTGAAGAGTTTGGTTAACCAGTATGTGATCTGCCAAAATGATAACCGGTTGAAATTCCTGCTCCCTGTCAAGGACACCTGTTGGACTCTACAGGCTTACACACACTCACAACCACAGATAAACAATCACCGATCCCCTCATCCAAACGCCTTCGTGTGCTTTCACCCACTGGAGGGGGTAGGCGGTCTGCGACCGGCGCCTCCATGGCTGCAGGACCAGGCGGCTGCCAGCCCTCATCGGACGACATCCATATCCCCTGTTCCCATCCCATTTGTCAACGTTGTGTCTTGTCCGTGTGCTTTCTTGTGCTGAATTGGGCTGTTTTTCTCCCTGTCTCACTTTGCTCTAATCAAGAGCAAGGTTAGAGGGTGGTTTTTTTTGCGTTTCTGATGTATCTAACTTGCCTTTCTAAATGCTACCTCCTGTGACCCGTCTTCCCCTGATAATTGTGATGTTTGTGTACGGTTTGGGGGGAGGAGAGTTCAATTTCACTATGCGAAAGTGTATGTGACAAATAAAGGCCTGATTTGATTTGATTTGGTTAGCATGATATCTTTGAAATACAGTCCCTCCCCTGCAGTTTAAAGCCACGCCTACTGAAACACAAACACACACCTTAAAGATGACAGCAGACAACCCACTAGTTCATGTCATCCGCCATTTAGAAATCTAGTTAGTGGTTGGCTGAAGGCGTGCAGGAATTACACTTAATCTGCTTGTATTTTTCTTTCCTCAG
Seq C2 exon
AAGGTGAAGTTCATTGCTGTAACCAGCTTCCTCTGTCTGCGGTTCATCTCACCTGCCATCATGTCTCCAAAACTATTTCACCTACGAGAGAAACATGCCGATGCCCGTACCAGCCGTACACTCCTGCTACTTGCCAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000029372:ENSDART00000097374:13
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=0.000
Domain overlap (PFAM):
C1:
PF0061614=RasGAP=FE(33.7=100)
A:
NA
C2:
PF0061614=RasGAP=FE(23.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTGCACCGTCAGCAGACAG
R:
GCAAGTAGCAGGAGTGTACGG
Band lengths:
318-2001
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]