GgaINT0055939 @ galGal3
Intron Retention
Gene
ENSGALG00000005318 | F1NZZ9_CHICK
Description
NA
Coordinates
chr5:8354655-8355458:-
Coord C1 exon
chr5:8355389-8355458
Coord A exon
chr5:8354851-8355388
Coord C2 exon
chr5:8354655-8354850
Length
538 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTT
5' ss Score
8.17
3' ss Seq
CAATGTCCTTACTTTCCTAGAAA
3' ss Score
6.63
Exon sequences
Seq C1 exon
GGAACTATACAGAGACTTATGGATGGTGGTCACAGGAATTCATGATCTTACAGAGCAAGAATACAGACAG
Seq A exon
GTACTTTAAGTTCAACTTAATAAGAAAATATCAATCTTGCAAAATTATTTTTAATGTAAATGCACCTCTGAGATTGCTTATGATGCAACAACCTTCCAGCCTGAATGCTGGTCTTAATCTGCACTTGCACAATGGTTTTTATGTGACTGCCAGAGAACTTGTATCAACACAGACCTGTGCATTCATCAGTAATGAAATCTAAACCTTGGCATCCCAAGGGGTGCTTGAGTGAAGAGTATATTGTCTCTATTATGAAGATAGAAATAATAAGGGCACAGGTTTCCAGTTTACTCAGACTGGACTAATGTTTTTCCATGACTCTCTTCCTGCACTTGCTGAATGGAGTTTCCTGCACGTTTCCTGATTCATGTCTGAGAGCCGTAATCTTGACATGTTAATGTAAGGAAGTTGGTAACTTCAACAGCTGCTTTTAGATGTTTTTCTCCTTAAGCATCTTGCATATATCCTGAATATTTATAAAACCAAAGGCTTAAATTCCCAAGTCATTGAGCAAATGTCAATGTCCTTACTTTCCTAG
Seq C2 exon
AAAAGATCAGTAAAGCAGTATATTATACATCCAAGCTTTAACAAGACCACTATGGACTCTGACATCGCTTTACTGCAACTGGCTGAGCCCTTAGAATTCAACCACTATGTGCATCCCGTGTGCCTCCCTGCAAAGGAAGAAGTGGTTCAGCCCTCCAGTGTATGCATTATCACAGGATGGGGAGCACAGGAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005318:ENSGALT00000008522:17
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(9.8=100)
A:
NA
C2:
PF0008921=Trypsin=FE(27.8=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:
CTATACAGAGACTTATGGATGGTGGT
R:
CTTCTTCCTGTGCTCCCCATC
Band lengths:
262-800
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]