GgaINT0123609 @ galGal3
Intron Retention
Gene
ENSGALG00000024350 | F1NKE5_CHICK
Description
NA
Coordinates
chr16:258012-258655:+
Coord C1 exon
chr16:258012-258287
Coord A exon
chr16:258288-258382
Coord C2 exon
chr16:258383-258655
Length
95 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
ACAACGTCACCAATCGGCAGAGC
3' ss Score
1.81
Exon sequences
Seq C1 exon
GGTCTCACACGATGCAGATGATGATCGGCTGTGACATCCTGGAGGACGGCAGCATCCGAGGGTACGATCAGTATGCATTTGATGGGAGAGACTTCCTCGCCTTTGATATGGACACGATGACGTTCACTGCGGCGGATCCGGTGGCAGAAATCACCAAGAGGAGATGGGAGGAGGAAGGGACGTATGCTGAGAGATGGAAGCATGAGCTGGGGACTGTCTGCGTTCAGAACTTGAGGAGATACCTGGAGCATGGGAAGGCGGCAGTGAAAAGGAGAG
Seq A exon
GTGAGGATGGGAGGGGGACTTGGGGCTGGGCTGGGTGTGGGGCAGGGGCTCAGTGTGTGGAGCTCAGCCCGGCCCACAACGTCACCAATCGGCAG
Seq C2 exon
AGCGGCCCAAGGTGCGAGTGTGGGGGAAGGAGGCCGACGGGATCCTGACCTTGTCCTGCCACGCTCACGGCTTCTACCCGCGGCCCATTGCCATCAGCTGGATGAAGGACGGCATGGTCCGGGACCAGGAGACTCGCTGGGGGGGCATTGTGCCCAATAGGGATGGCACCTACCACGCCTCGGCTGCCATTGATGTGCTGCCGGAGGACAGGGACAACTACCGGTGCCGCGTGGAGCACGCCAGCCTGCCCCAGCCTGGTCTCTTCTCATGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000024350:ENSGALT00000041159:3
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=0.087
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PD(50.0=94.6)
A:
NA
C2:
PF0765410=C1-set=WD(100=87.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
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:
GAGGAGGAAGGGACGTATGCT
R:
TGGCAGGACAAGGTCAGGATC
Band lengths:
170-265
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]