DreINT0069054 @ danRer10
Intron Retention
Gene
ENSDARG00000055713 | fmnl1a
Description
formin-like 1a [Source:ZFIN;Acc:ZDB-GENE-120215-83]
Coordinates
chr3:37087811-37089601:+
Coord C1 exon
chr3:37087811-37087912
Coord A exon
chr3:37087913-37089502
Coord C2 exon
chr3:37089503-37089601
Length
1590 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
ATTTTCGTGTCACACAACAGCAA
3' ss Score
3.89
Exon sequences
Seq C1 exon
GAGGCATATGCGGCTGTGGTGGAGTATTACGGAGAAAACCCCAAGACGACACAGCCTTCCATGTTCTTCCCAATCTTTGCAAGGTTCATCAAAGCTTATAAG
Seq A exon
GTGAGAAAAAGTGTTCAGCACATACTGTACATACAGGCTGTAACATTAACTCTCGTACCAAGCACCAAGAGAGAAAACATCGGATACTTGACTGTCATTTTTAAAATTAGTTTTAAATATTTTAATAATTACCAAACAACACAACAACAATACAAGAAATACATGAAATAAGCATAATAATACAAAGAAAATAATGGTAATAATAAAAATAATAATAATAATAATAATAATAATAATAATAATTCTGTGTAATTTAGATTTTGAGTAGTGCAGTCTATGCATTACTTTAAACTGAATTAATTTATGCCTGTAATTAACAGAACATGATCGAATTCTACTGAGGCGTTTCTCCCATGTATTAATTTCAATCTGTGTACCTAGTTCCTCTTCCCAAGCAGTCTTCAAATGTGTTGTAGAGTAACTTGATACATATTGATACATATTGATGATTGATACATATACAAAATCTGAAATCAAATATTTAAAATCAGGTGAGCCCAATAGTAGCCTGTCAACCTTTCTTTCATCTGGCAGCGATTCAAAACTGGGTATCACATGACTTACATAATTTCTAATCTGCAAATATCTTGACTGTAATGTTTTACATTTCCTCACAAGCTCTATGGTTTAACATTTGGAAGCAGAAAAAAAACAATCAAAAAACTAACAAATCATAAACATTAATAACAGCCTTTAATTAAACTATTTTTTAAAAAAGTGTATTTTTTGGTTTGTTAAATTTAATAATAATAATAATATTATAAACTGTCATGAGATATTATTCCTTCTTTCAAACTGATTTTAATCAAATAATGCATAAACTGTATAGTAAAAGTCAGAATTATTTGCCCCCCTTTGAATTTCTTTTTCTTTTTTTTAATTTCCCAAATGTTGTTTAACAGAGCAAGGAAATTTTCACATTATGTCTGATAATATTTTTTTTCTTCTGGAGAAAGTCTTATTTGTTTTATTTCACCAAGAATAAAAGCAGTTTTAAATTTAAAAAAACCTTTTCAGGTGAAAATTATTAGCCCCTTTAAGCTATAAATTTTTTCTGATAGTCAACAGAACAAACCATTGTTATACAATTATACAATGACTTTCCTAATTGCCCCAACCTGCCTAGTTAACTTAATTAACCTAGTTAAGCCTTTAAATGTCACTTTAAGCTATACAGAAGTGTCTTAAAATATCTAGTAAAATATTGTTTCAGTTATTAGAAATGAATTATTTAAACGATTACGTTTAGAAATGTGTTAAAAAAAACTTCCCTCCATTATTAAACATGGGGGCTAATAATTCAGACTTTAACTGTAGTTCTATAACCAATAAAAGATGATTTACTGTCACTAGCCACTATCATGTGGCAAAATGTTAGTTTAAGCCATGCACACACATTTTTAAAGGTAATTAAAGCTGTTTGATCGTTCAGATGCTAATGGGAATTGCTTGAAATAGTGCATGTAAAGAAATAAAATGTTGAATAAGCATGCTGAAAGAGCTGAGCTCTACACCACGAGCAAAGAAACTGCAAGTTTCACAGCTTGATTATTAATTACTGTGGTGGTCTATTTTCGTGTCACACAACAG
Seq C2 exon
CAAGCGGAACAAGACAACGAACAGAAGAAGAAGCAGGAAATGGCAGCAGAAGAACAGGCAACCCCTTCCCCAAAAAAGAAAGAGGGCACCCCTCAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000055713:ENSDART00000151144:23
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.029 A=NA C2=0.939
Domain overlap (PFAM):
C1:
PF0218118=FH2=FE(9.0=100)
A:
NA
C2:
NO
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:
CATATGCGGCTGTGGTGGAG
R:
GGGGTGCCCTCTTTCTTTTT
Band lengths:
190-1780
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]