GgaINT0055940 @ galGal3
Intron Retention
Gene
ENSGALG00000005318 | F1NZZ9_CHICK
Description
NA
Coordinates
chr5:8354099-8354850:-
Coord C1 exon
chr5:8354655-8354850
Coord A exon
chr5:8354251-8354654
Coord C2 exon
chr5:8354099-8354250
Length
404 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGT
5' ss Score
9.79
3' ss Seq
AAGATGTCTTTTATTTCAAGACA
3' ss Score
2.92
Exon sequences
Seq C1 exon
AAAAGATCAGTAAAGCAGTATATTATACATCCAAGCTTTAACAAGACCACTATGGACTCTGACATCGCTTTACTGCAACTGGCTGAGCCCTTAGAATTCAACCACTATGTGCATCCCGTGTGCCTCCCTGCAAAGGAAGAAGTGGTTCAGCCCTCCAGTGTATGCATTATCACAGGATGGGGAGCACAGGAAGAAG
Seq A exon
GTATGTAGTCTTTGCCATTTTGAGGGTTGAGCGGACTGTGGCTGTATTTTATGGTTTGTTCCGTGTTGCAACATGAATTCTATCTATACTTTTGATTCCTGGAGAATTGATATGTTAAAAAGCTTTCACTTACGCAAGCTCAGATGGTCTTGCATGGAAATGAGTAGAAGAAGCAATCAGTTTAGATTTAGGCCATTTGGAAAGTCAAGCTGTTTTCTGGAAGCCTTAAAATAAGCAGACTATATAAAATCTAGAGATGTGTAGAGGAGAGCAGTCCTGCTATGGTAGAAGAAAAAAGCAAAGGAACTAGGAGATATCTATCATTCTTTGTGATAGAAGGTGAGGCAGGCACGGTATCATTAATTAATGCCTCTGCCAGTTTCTAAGATGTCTTTTATTTCAAG
Seq C2 exon
ACAGAGAAAAGAGTAAAAAGTTGTATCAGCTGGAAGTTCCCATCTTGATGCTTGAAGCATGTCAGACCTATTACATAAATCTTCCCAGTAGAGTGACTCAGAGGATGATCTGTGCTGGATTCCCTCTGGAAGAAGGCAAGGACTCGTGCACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005318:ENSGALT00000008522:18
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:
PF0008921=Trypsin=FE(27.8=100)
A:
NA
C2:
PF0008921=Trypsin=FE(21.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTATACATCCAAGCTTTAACAAGACC
R:
TGTGCACGAGTCCTTGCCTT
Band lengths:
326-730
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]