GgaINT0036006 @ galGal3
Intron Retention
Gene
ENSGALG00000011394 | F1NT96_CHICK
Description
NA
Coordinates
chr8:27458489-27459268:-
Coord C1 exon
chr8:27459136-27459268
Coord A exon
chr8:27458677-27459135
Coord C2 exon
chr8:27458489-27458676
Length
459 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGA
5' ss Score
9.11
3' ss Seq
TAACTGCTTTTTCCAAACAGCCC
3' ss Score
8.71
Exon sequences
Seq C1 exon
CCCAGTGGCAGTGAATTCCATGAGGAAAACCTGGTGGCATGTGCTCTTGACCTACTGTTTGCTGGGACTGAGACCACTTCCACAACCATCCGCTGGGCCCTGCTGTTTATGGCCGTATATCCGGAAATTCAAG
Seq A exon
GTATGAGTAGCAACAGGGCTGTGCTTTTCCTGTTTTTAAACCTTGGTGAGAGTCTCTCTTTTGGCTGAAAGGAAAAACAGGAATCCCCCTGTGCCCATAAAAATGAGGAACAAATGCTTTCCTCTGTATTCAGGCACATGTCTAAGCTGTTTTAAAACTTTCCCTGGTAATTCCATAATGCTTTAATTTGGGACCAAGAATCAAACACAGGCACTTCCCCCACAAGCACAGGAGATCCCTGAGGGCTTTATAGCAGAAGCGGAAGAGGCTTTGAAGACAACATAGGGCCCATTTAGTATCTGGAGTGACAAACATGCATGGAGGTACCAGGAGTCTCCTGGTGGCACAGGATTGACCTGGGTTGGTCCTTTGAAGACTTGCATAGCAAAAAGTTCATGGTGTCCCCAGGGGATCCATGGCTTTGCTGCACTGTAGCTGATAACTGCTTTTTCCAAACAG
Seq C2 exon
CCCATGTACAAGCGGAGATCGATGCTGTCATTGGGCAGGCCCGGCAGCCAGCCCTAGAGGACAGGAACAACATGCCCTACACCAATGCCGTCATACATGAAGTGCAGAGGAAAGGCAACATCATCCCTTTCAATGTGCCGAGACAGGCGGTGAAGGACACAGTCTTGGCTGGTTTCCGGGTGCCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011394:ENSGALT00000017746:6
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=0.016
Domain overlap (PFAM):
C1:
PF0006717=p450=FE(9.7=100)
A:
NA
C2:
PF0006717=p450=FE(13.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCAGTGGCAGTGAATTCCAT
R:
GGAAACCAGCCAAGACTGTGT
Band lengths:
310-769
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]