GgaINT0123529 @ galGal3
Intron Retention
Gene
ENSGALG00000004772 | F1N816_CHICK
Description
NA
Coordinates
chr16:352145-352788:+
Coord C1 exon
chr16:352145-352420
Coord A exon
chr16:352421-352515
Coord C2 exon
chr16:352516-352788
Length
95 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
ACAACATCAACCACCTGCAGTGC
3' ss Score
3.89
Exon sequences
Seq C1 exon
GGTCTCACACGATGCAGATGATGATCGGCTGTGACATCCTGGAGGACGGCAGCATCCGAGGGTACGATCAGTATGCATTTGATGGGAGGGACTTCCTTGCCTTTGATATGGACACGATGACGTTCACCGCGGCGGATCCAGTGGCAGAAATCACCAAGAGGAGATGGGAGACAGAAGGGACGTATGCTGAGAGATGGAAGCATGAGCTGGGGACTGTCTGTGTTCAGAACTTGAGGAGATACCTGGAGCACGGGAAGGCGGCAGTGAAAAGGAGAG
Seq A exon
GTGAGGATGGGAGGGAGACGTGGGGCTGGGCTGGGTGTGGGGCAGGGGCTCAGTGTGGGGTGCTCAGCCCGGCCCACAACATCAACCACCTGCAG
Seq C2 exon
TGCAGCCCGAGGTGCGAGTGTGGGGGAAGGAGGCCGATGGGATCCTGACCTTGTCCTGCCACGCTCACGGCTTCTACCCGCGGCGCATCGCCATCAGCTGGATGAAGGACAGCATGGTCCAGGACCAGGAGACCCGCTGGGGGGGCATCGTGCCCAATAGGGATGGCACTTACCACACTTCGGCTGCCATTGATGTGCTGCCGGAGGATGGGGACAAGTACCGGTGCCGCGTGGAGCACGCCAGCCTGCCCCAGCCTGGCCTCTTCTCTTGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004772:ENSGALT00000023519:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.054
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PD(53.3=94.6)
A:
NA
C2:
PF0765410=C1-set=WD(100=87.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
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:
AGATGGGAGACAGAAGGGACG
R:
CAGGACAAGGTCAGGATCCCA
Band lengths:
173-268
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]