GgaINT0123607 @ galGal3
Intron Retention
Gene
ENSGALG00000024350 | F1NKE5_CHICK
Description
NA
Coordinates
chr16:257304-257766:+
Coord C1 exon
chr16:257304-257379
Coord A exon
chr16:257380-257505
Coord C2 exon
chr16:257506-257766
Length
126 bp
Sequences
Splice sites
5' ss Seq
GCGGTGTGT
5' ss Score
5.95
3' ss Seq
GTCGCCGTCTGTCCCCGCAGGGT
3' ss Score
11.85
Exon sequences
Seq C1 exon
CTGCTGCTGCTGCTGCTGCTGCTGCTGCTGCTGCTGCTGCTGCTGCTGCTTGGCGCCCTGGGCGCGGCGGTGTGCG
Seq A exon
GTGTGTACTGCGGGATCGGGCTGCCCCCGGCACCGGGACCCGCGGCTCCCCGCTCCCCGACGCCGGGGCTGCCTCCGCGGGACCCCCACCCGCGGCTCACGGCTCTGTCGCCGTCTGTCCCCGCAG
Seq C2 exon
GGTTGCACTCCCTGCGCTACTTCCTGACCGGGATTACGAATCCCGGCCCCGGGATGCCGCGGTTCGTGATCGTCGGGTACGTGGACGACAAAATCTTCGGTATCTACGACAGTAAGAGCAGGACTGCACAGCCCATCGTGGAGATGCTGCCGCAGGAGGACCAGGAGCACTGGGCTGTGCAGACCCAGAAGGCCCAGGGCGGTGAGCGGGATTTTGACTGGTTCCTGAGCAGGCTGCCGGAACGCTACAACAAAAGTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000024350:ENSGALT00000041159:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.045
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PU(0.1=0.0)
A:
NA
C2:
PF0012913=MHC_I=PU(49.4=98.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCTGCTGCTGCTTGGC
R:
TCAAAATCCCGCTCACCGC
Band lengths:
257-383
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]