DreINT0069048 @ danRer10
Intron Retention
Gene
ENSDARG00000055713 | fmnl1a
Description
formin-like 1a [Source:ZFIN;Acc:ZDB-GENE-120215-83]
Coordinates
chr3:37081812-37083996:+
Coord C1 exon
chr3:37081812-37082043
Coord A exon
chr3:37082044-37083927
Coord C2 exon
chr3:37083928-37083996
Length
1884 bp
Sequences
Splice sites
5' ss Seq
CCGGTCAGT
5' ss Score
7.53
3' ss Seq
TTGAAAACCTTTTTCTGTAGCAA
3' ss Score
4.97
Exon sequences
Seq C1 exon
TTATGATCAGTCTCTGAGCTTAGACTTTCTGGAACTTCTGGAACGCTTCATCCCATCGGAGTATGAGATGAAGTTGCTCCAGAACTATGAGAAAGAAGGACGTCCTCTAGAAGACCTGAGCGAGGAGGACCGTTTCATCAGCCGCTTTGGGAAAATCCCACGTCTTTCCCAGCGGATTAACACTCTTACCTTCATGGGGAACTTTCCAGAAAGCATCAAACGCCTGCAGCCG
Seq A exon
GTCAGTTAACATTACAGTTAGGCTTATGATATACGATATTATCACAATAAAGACGTAAGCTGCAAAAAAGATTGTTAACTGGTATAATAATCAAAAATATTTACAGTAATGATTTAGTGGTCAATCATACTAAACACCTTTTTCTGTTCTGAAAATGTGAGGCGCAATGAATTGCCTTTTTTTTGTTGACAAGAAAAAAAGGAGTGCACTGTGCCAAAGCCCCTTTAAGGAAAGTCATTTCACTCGGCGGCCATCTTTGAAACGTCTCTTGGGCAGTATGTTCGGGCATTTTGTGTGAATGAGGAAACATCAAAGTCTCCAAAATTGCCAAGCTTATTATCAAATTTCATATTAAGAATCACCAAGAAAATTGAACAACAACCATGTATTTAGTTGATTATTTCTAAACGTTCGAATTACACAAAATTTGCAGAAACTCATGTCTGGTCCAAACCCCTCCCCTGGTTATTCGTCAGTCTATAGCAATCACTGATTGGCTCTTGTACTAGAAGGCGGGGCTTCATTCGTCATGTTGACCATTACCTTTTTTCCTACTCAAAACTATATAAGTGACACGTCTTGTGTAATCTATAGTCTTTGTGTGCACTTATTACTGTTGGTTGCTAGGCTATTACCAATTATCTAGGCTATTACCTATTTAGGCCTGCTGCTTTTTTATAATATTGTGAAATTCACAAATCATTAAGTTTGGATATTGGATAACAGTCCAGATAAGTCTGGATAGCTCAGAAACAGCGAGCACTAGTCTCTCCTCCATCTCTCTCCATCTTGACATCACAAACACTGCTGTCACTTCAACGGAAACCCCGTCTCTGCTTTCATTTAATTGGACAATAAAAAAAGACTTGACTGACTTCGCAAACTTTTTCCGCTCAGAATTGACATTTTTTCAACTGCAGGCCCACAGAGCGCAATGTCAAAAACACAAGTTATCCATTTAAAAAAAGGCACCACTCATTACAATACACCTTATTGAACAACTAGAGAACCACCAGCTTTGCACATTTTCCATGTCTCCTTAACCAAACACACCTAATTCAGATCATAAGCTCATTAGCAGAGACTGAAAGACCTGAAATTGGTGTGACAGACAAAGAAGACATCAAAAACATGCAGTGTTAGTGTTCCTCCAGGAAAATGGTTGAGAAACACTGACTTTATGCATTATTAAATAACAGTGAGAAATAACCACATTTCTTACAGTTACTATATTAAAGGGCACCTATGATGAAATTATAGGTGGAAACCTATAATCTGTTGGGAGCTATTTGGACAGAATTGTGAGCAGGTACACTCTCAGAAATAAAGGTATGTGAGCTGTCACTGGGGTGGTAGCTTTTTAAAAGTTACAAATTTGTACCTAAAAGGTCCATATTAATACCTCAAGGGTACATATTAGTACCTAAAAAGTACAAAAGTGTTTCTCTTAAAATTTGTAGGTACTATTATATACTTTTGAGGTACCAATATGGACCCTTCAAGTACAGATGTGTACCTTTTGAAAAGGTACCACCCCAGTGACAGCTTGTGTACCTTCATTTCTGAAAGTGTATAGTGTGTCCACTGTCATATTGGGGTGAAAATCTAATAAAACTCGTTTTGGAAATTTCCTGATGTTAGAATAGGGTCCAAATCCCTCCCATTTTGAGGCCCACCAATACTACAACCTGACTCTTTAAAATACAATCTAAAAAATTAACAATAAATAATTATTCATAGTATTTATAAGAGCTTCAGCCTACAAAATCAATAGTGTGCATGTTCATCATCACAATATCTTAAATATCATCATATATCTAGTCATTGTTTGTCTGTTGTACCCAACGTAAGGCATATGTTTTAATTGAAAACCTTTTTCTGTAG
Seq C2 exon
CAACTGGATGCCATCATTGCAGCATCGGTGTCCCTCAAGTCCTCATCAAAGCTGAAGAAGATGTTAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000055713:ENSDART00000151144:18
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:
PF0218118=FH2=FE(21.0=100)
A:
NA
C2:
PF0218118=FH2=FE(6.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGATCAGTCTCTGAGCTTAGAC
R:
ACATCTTCTTCAGCTTTGATGAGGA
Band lengths:
294-2178
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]