GgaINT0039368 @ galGal3
Intron Retention
Gene
ENSGALG00000010911 | F1NT95_CHICK
Description
NA
Coordinates
chr8:27482446-27483319:-
Coord C1 exon
chr8:27483118-27483319
Coord A exon
chr8:27482609-27483117
Coord C2 exon
chr8:27482446-27482608
Length
509 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
TTTATTTACCTCATCCCCAGTTT
3' ss Score
6.94
Exon sequences
Seq C1 exon
CTGCACCCGCACCATGCTGCGCTTCCTCTGGGACAGCATCTCCCTGCAGATGCTCTTCATCTTCCTCCTTGTCTTCCTGCTCGTCTCTGACTACATGAAGAGGAGAAAGCCGAAGGACTTCCCCCCCGGTCCTTTTTCCTTCCCTTTCCTGGGAAATGTGCAGTTTATGTTTGCGAAAGACCCCGTGGTTGCAATACAGAAG
Seq A exon
GTAAGGGGGTTTTCATCTTGGGGAGGGGGCCATCTCAACGCACTCACATTCAAACCCTTTGGTTAACAGAGGGTTCTCCATGCAGGAGAACATCAGTGTGACCTGGGATCAGTAGGCTACATGGATGATGTTTGCCTTGGAATACAGAGCCATGTTCTTTGGGCAAAGGGCATGGTACAACAGGTTGGGTTCAATTGCAGCTGTAGGTGGGTCTGTTGGGAAGCTGAAAATCCTTGCTCAGCTGAGTCTTGCAAAGCCTGGAAAATGCAACTTGGAGGGTTTGACCCCAACTCCGGAACAGTGATAGAAGAAATGAGGAAAAAGATTGCACGCTATCAAGCCAACACTTGTGCAATTACTCTACTACATCTTCCAGACTGAGTCTGCCCCATTTCCACTGCAGCTCTTCAGGTCCCAACCTATGGGTGCAGGATACCAGTATTTTTCTCTCTCCTAGCAGAAAAAGCATTGCAAATCAATCTGGGTTTATTTATTTACCTCATCCCCAG
Seq C2 exon
TTTATTGAAAAACATGGAGACATCTTCAGAACGCAAGTGGGCAGCATGTCATTTGTGATCGTAAATGGGCTGCCACTGATCAAAGAAGCCCTTGTGACCCAGGGAGAGAACTTCATGGATCGCCCGGAATTTCCTACAAATACAGAATTCTTCAACAAATTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010911:ENSGALT00000017750:2
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:
PF0006717=p450=PU(5.8=44.8)
A:
NA
C2:
PF0006717=p450=FE(11.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
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:
CGCACCATGCTGCGCTTC
R:
TTCTGTATTTGTAGGAAATTCCGGGC
Band lengths:
342-851
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]