DreINT0069080 @ danRer10
Intron Retention
Gene
ENSDARG00000012586 | fmnl2a
Description
formin-like 2a [Source:ZFIN;Acc:ZDB-GENE-081105-70]
Coordinates
chr9:4778738-4780905:-
Coord C1 exon
chr9:4780810-4780905
Coord A exon
chr9:4778862-4780809
Coord C2 exon
chr9:4778738-4778861
Length
1948 bp
Sequences
Splice sites
5' ss Seq
AAGGTACTA
5' ss Score
7.52
3' ss Seq
GTATGTATATGTGTGTTCAGTCT
3' ss Score
4.77
Exon sequences
Seq C1 exon
CAAGCAGAGGAGGATAATGAACAGAAGAAGAGACACGAGCAGATGATGATGGAAAAGCTGATTGAGCAGGAGGCGATGGAGCAGGAGGATCAGAAG
Seq A exon
GTACTAATAATGACAAAATAATGATAGTGAGATTTCAGTAGTGTTTTAGTGTTTGCGTTTGTGTGTGTCATGGATAGACCTACGTGGAATCTGCTTAATTTCGCCCATTTTCAGCACCTCATTAAAGGGCCATGAAACCCCCTCGTTTCAGCAGGGTGTTTTCACACCTCTACTTTGGAAAAAGTCAGAAAAGTGGGCGTGTCCAGCTCTGTTTAGGGGGGAGTGTCGGAGGAAGAAAAGAGGCTTGGTGTGGGAGTGTCTATTTGGGCGCGCTGAATTTCAGAGTCAAAACACACAACCACAGCGGACAATGTGACTGTGTTTACATGGACATCTGTAGTCGAATTATTTGCCAAATTATTAAATGGTGGACTTTAACTGCAGTTTGGCTCTTTCATACAGGGAATTCATTCATGTCCCTCCTGACAAACGTGATATTTGATTCGAGGAACTGCTCTAAGCGTGTATTTTTCATGCAATGTTTGATACCGCACGCCGAATGAGAGAAAAAACTCAGCATTTCCCGGAAACTTAGATGCACACGGCAGATAGTGTCAGAAAGCCGCGTGTCTTATTCCGGTCACAAAATCCTACATGAGGTTATAGTTTGGTTGTAAAGCTAACTTGTTTACACTCGGTGCAATAGTTTGTTTGATACGAATAAAATACGAACTGAATAAACAAAGAGCACTGGTCGCTCACTTACCAAATCTGTAGAGACAGAACAATCACCAGCAACTAGAGCCGCGTCTTTATTAAGAGAAGACTACAAGCGAAACCGGATCTCAGCGTTTGCAGATGAGAACAGCTCTCAGGTAAACAATAATCCTCCTTAGACACGTAAGTTATTGTTGTCGCGCGTCGCGTACACTGTTAATCCACACGAGTCTGCGCTCTCACAGAGAGAAAATGAAAACGAAACTTAACTGCAGCAAAATATAAAAGCAACACTTCACGCTTGTTTTGCCAACACAACGTGGTGTCTCTGTCGTCTAAACACTGTGACAGTAATAAATATTAATGAAGTTGTACAATAGAGCGCGCTGATTGGTTTGAACCAAGCCTTACTCATGCATTAATGCAGCACACTGTAAGACGTAATAAGACACACTCTGGCACAGACGTCCAGTCTGCACGCTGGAATACACGCTATTATGTCATGACCGTGACGCAGCTTCAAAAATTCGTTTCAAACCGGAAGTACGAATTTGCTTGAAATAACGCAAAAACAACCAATTTACACCTTTTTAGTGAAATATAGGTGTCCTAATAGTGTTTTTAGCAGTGTGAGACACATATACGACTGTCAACAACTCAAAAAATGTGTTTTGGTGTTTCGTGACCCTTTAAGTATATTTATTTAGCGGTGTGTAAATTTATATCTATTCAGTTTTTAAATGGATTTCAGTAATTTTACTGACTAATATGAAAACCTTTTTATGATTTACTTACAATACAGTTAGTAAATTAAACATTTCTGTCTTTTAGCAGACATATGCACTGCAAAAAAATGCCTTTCTTACTTAAATTTTTTGTCTTGTTTCTAGTACAAATATCGAAAAGTTCTTAAATCAAGAAGCATTTTCTAGACGGGCAAAACATATTGTCTTGTTTTAAGAAATAATATGCCAAAATGAAGCGTGTTTTTCTTTAAAACAAGCAAAATAATCTGCCAATGGTGTCAGCAAAATAATCTTATCACGAATCAAAAAAACAAGATTATTTTGCTTGATTTGAGGAAAAACTCACTTCATTTTGGCATATTATTTCAGCCTGCGTACCACAGTTTGAGAACCACTGCTCTACATTGTATAGCCCATTTTCTTTCGCTGGGTATGCCATCATTTGAACGCATTGTATAAAGGAGTGTGGGGAGAAGTTTTGTAGATTAACATAACATTGAATGTGGTTGTGTGAGATGTCATTATGTATGTATATGTGTGTTCAG
Seq C2 exon
TCTCCCTCTCATAAGAATAAGCGTCAGCAGCAGGAGTTGATTGCAGAGCTGAGGAAAAAGCAGGTGAAGGACAGCAGACACGTGTATGAGGGTAAAGACGGAGCCATTGAGGACATCATCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000012586:ENSDART00000016814:24
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.934 A=NA C2=0.551
Domain overlap (PFAM):
C1:
PF0218118=FH2=PD(0.1=0.0),PF035358=Paxillin=PU(15.0=45.5)
A:
NA
C2:
PF035358=Paxillin=FE(41.0=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:
CAAGCAGAGGAGGATAATGAACAGA
R:
TGATGTCCTCAATGGCTCCGT
Band lengths:
214-2162
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]