GgaINT0123522 @ galGal3
Intron Retention
Gene
ENSGALG00000002614 | F1NH73_CHICK
Description
NA
Coordinates
chr16:366747-367586:+
Coord C1 exon
chr16:366747-367065
Coord A exon
chr16:367066-367310
Coord C2 exon
chr16:367311-367586
Length
245 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
TCACCCTGGCTGTGCCTCAGGGT
3' ss Score
6.78
Exon sequences
Seq C1 exon
CTGCGTCCGCGGGACCCCCACCCGCGGCTCACCGCTCCGACGCCGTCTGTCCCCGCAGGGTTGCACTCCCTGCGCTACTTCCTGACCGGGATGACGGATCCCGGCCCCGGGATGCCGCGGTTCGTGATCGTCGGGTACGTGGACGACAAAATCTTCGGTATCTACGACAGTAAGAGCAGGACTGCACAGCCCATCGTGGAGATGCTGCCGCAGGAGGACCGGGAGCACTGGGCTGCGCAAACCCAGAAGGCCCAGGGCGGTGAGCGGGATTTTGACAGGGGCCTGGGCAGGCTGCCGGAACGCTACAACAAAAGTAAAG
Seq A exon
GTGAGCGTGGGGGAAGCTGCAGCGCGATGCGTCTGGGACAGGAGCTCTGTGTGCCGAGGCTGTCCGCCAGCCCCACTGATGTCTGGCCGTGCCCCACGCCCGGCTGTGCTGGGCCGTCCATGTGTGGTGGCACTGTCCCTGGGCTGCCCTGCTCCTGCGCCCACCCACCCCACCCCAGCCTCATGGCACTCACGGTGCCCCACAGCCCAAGGAGCCCCTCACCTCTCACCCTGGCTGTGCCTCAG
Seq C2 exon
GGTCTCACACGCTGCAGATGATGTTTGGCTGTGACATCCTGGAGGACGGCAGCATCCGAGGGTACGATCAGTATGCATTTGATGGGAGGGACTACATTGCCTTTGATATGGACACGATGACGTTCACCGCGGCGGATCCGGTGGCAGAAATCACCAAGAGGAGATGGGAGACAGAAGGGACGTATGCTGAGAGATGGAAGCATGAGCTGGGGACTGTCTGTGTTCAGAACTTGAGGAGATACCTGGAGCATGGGAAGGCAGCGCTGAAAAGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002614:ENSGALT00000004115:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.523 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PU(49.4=81.3)
A:
NA
C2:
PF0012913=MHC_I=PD(50.0=94.6)
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCGGGTACGTGGACGACAAAA
R:
AAGGCAATGTAGTCCCTCCCA
Band lengths:
292-537
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]