GgaINT0037489 @ galGal3
Intron Retention
Gene
ENSGALG00000008945 | NEXN
Description
NA
Coordinates
chr8:19620790-19622317:-
Coord C1 exon
chr8:19622117-19622317
Coord A exon
chr8:19621012-19622116
Coord C2 exon
chr8:19620790-19621011
Length
1105 bp
Sequences
Splice sites
5' ss Seq
GAGGTTTGT
5' ss Score
6.36
3' ss Seq
TGTTCTGTTATTTCTAACAGCTG
3' ss Score
9.64
Exon sequences
Seq C1 exon
GTGCTGGATGATGATGAATCACCGGAAATGTTTAAAACATTTTCTCAAGAATCTCTCATCCCTGGTAAACTGGAAATTAATTTTGAGGAGATGCTGAGACAAAAGATGGAAGAAGAAAAGAGACGCACGGAAGAGGAGCGTAGGCAAAAGTTGGAAATGGAAAAGCAAGAATTCCAACAACTAAGACAAGAAATGGGAGAG
Seq A exon
GTTTGTATATCAGATGTGTTCAGCATGCTCTGAGGAAAATACAATATTCAAATTTCAGAGTTTAAGATTTTAACTGGAAGTTCCTTTTTAAGGGATTTTAAATCAATACTCCCTGTATTATGTGCCAAGAATGAAAATCAAAAATATCTTTTTATAACGTTGCATACATTTAATTACTAATCTGCCAGGAAAACACTTGTATCCCCTTGCTACCCTTTAAGTAAAAACAATTTCAAATTGGTTGTTGTAGGATTTTACTGAAGTTACCTGCAAATTCTACTGCGTTAATAAAATGCATACGCTGTCTTTCCAATACTGAGAAAATAGAAACACCTACATTCAAAATTAAAAAAATGGAAAAAAAAAAAGCAAAATTCCTGCCCTCGTCAGGGAAATGCTGCGTTAAATAACTTGAAAACAATTACAGTGACCTCACGTTGTTTCTAGTGAGTGTAGCAAGGATTTGAAGGCTGTCACAGCTGATTTTAAGAATCACACGCAGAATTCGCCTTGCATACCAGATGACTAAAACATCACATTCACGAAGTGTACACCAATTTGATTTGCCTGTGGGTGGTGATTTTCAGAATATGATTCCCTTTTGAATATTAGAGGTTGACTTTTTTTTTTTTTCTTTTTGTAAGCAAAGCTAGAGTGAGTAATAAAGGCTGCAGCCTGTGAGCTGTGCAAGTGCATTTTGAATTGCATGCTGGGGGACACACAACTAAAATGCATTCTCTTACTGCCATCAGAGGTCATGAAGTGATAGAGCAGAATATAAACAATTGCAGCATCAGACATAGTTTGACTGCAGTCTCCAGAAATGTCACTTCTTTTCCAGCCGTGACATCCTGAAATCTCATTTATTTGTTCTGTAAAACCAGAGAAAAAATATTTTAAAATTAAAGCTTAAAGATGCTATAAACTCAGTAGAGTCCAGACCACACCGAGAGAAAAGTTATTTCACGTTGAAGACCTTTTCCTTCTAATAACTCCAAGCTAAAAGAATTGTTCAAGTATTCAAATAACACCAATCTATGGGGAGAACAGGTAGTGAAAATAACCAGGATATTTTCTATCTTATATGTTCTGTTATTTCTAACAG
Seq C2 exon
CTGGAAGAGGAGTCTGAAACTTTTGAGCTAAGCAAAGAATATGAAGAATTAATAAAGCTAAAAAGAAGTGGTTCTATTCAAGCGAAGAATCTGAAAAGCAAGTTTGAGAAGATAGGACAATTGTCTCAAGAAGAAATACAAAAGAAGATTGAAGAAGAACGAGCCAAAAGAAGAGCAATGGATGAAGAAATAAGAGAAAGGGAAGCTGAGAAGTTTCAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008945:ENSGALT00000014545:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.896 A=NA C2=0.541
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTCTCAAGAATCTCTCATCCCTGG
R:
CCATTGCTCTTCTTTTGGCTCG
Band lengths:
342-1447
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]