DreINT0089798 @ danRer10
Intron Retention
Gene
ENSDARG00000063646 | lnpa
Description
limb and neural patterns a [Source:ZFIN;Acc:ZDB-GENE-030131-4960]
Coordinates
chr9:2025406-2026479:+
Coord C1 exon
chr9:2025406-2025432
Coord A exon
chr9:2025433-2026437
Coord C2 exon
chr9:2026438-2026479
Length
1005 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGT
5' ss Score
10.45
3' ss Seq
ACTTGTGTGTCCATTTCCAGGCT
3' ss Score
9.69
Exon sequences
Seq C1 exon
ATGGGGGCTGTGGTGTCTCGGTGGAGG
Seq A exon
GTAAGTATGTGCTCCTGTCATTTAGTCTTGTTAAGGATTTACTTTGAAGGCCTGTTTGCTAAAAGAAAACCAAAATAAAAAGATCTAAAACTTGTTCCAAATGTAAAAGATCAGCAGAGTTCGTCATGACAGCAAACATGAGTCAGTCCCTTTTATAGGGTCATTTGCAGAAGGTTTTCAACTAAACAACCTTCATTCATTCATTCATTCTANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTCATTCTACTTCAGCTTAGTCTGTTTTTTTGTCAGAGCTCACCACAGCGTAATGAACCGCCAACTATTCCAGCCTATGTTTTAAATGGCAGATCCCCTTCCAGCCGCAACTCAGTACTGGGAAACACTCATACAATCTTGCAATTATTCTCTCACACACACACACACACACACACACACACACACACACACACACACACACACACACACACACACCAATTTAGTCAATCAATTCACCTATAGCGCATGTGTTTGGACTGTCAGGGAAACCGGAGCACCCGGAGGAAACCCATGCCAACATATGGAGAACATGCAAACTCCACACAGAAATGCCTGCTCCAGTCTGCACTAGCGACCTTCTTGCTGTGAGGCGACATTAACCACTGAACCACCATGCTGCCCCCTTTCTGGAACAGGAACAACTAAATATTCTAATCACTTTTGGCATAAACTAAAATAAATAGAAATTTTAGTTTTATAATATATTGTTGGCAATTCCTAAAAATGTACCTGTCCAGAATAAGGTTGTCCATGGGCACATGCATGGATTAAGAGTTCATGTTAGTTAATGTGACTTGATTATAAACTTCAAACACAGACACCCTTTGATTCACTTCCTACCAGTTTTAGTTGTGCTGAGGTTGTTTTATTCTGAGAGTTTTTTTCTTGCTAACACTTGTGTGTCCATTTCCAG
Seq C2 exon
GCTAAACCATCCACTGTAGAGGTCTTGGAGGGTCTTGATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000063646:ENSDART00000093187:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF083957=7tm_7=PU(5.7=88.9)
A:
NA
C2:
PF083957=7tm_7=FE(9.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]