GgaINT0123408 @ galGal3
Intron Retention
Gene
ENSGALG00000024344 | F1NKF8_CHICK
Description
NA
Coordinates
chr16:331136-331610:-
Coord C1 exon
chr16:331523-331610
Coord A exon
chr16:331397-331522
Coord C2 exon
chr16:331136-331396
Length
126 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGT
5' ss Score
10.49
3' ss Seq
GACGCCGTCTGTCCCCGCAGGGT
3' ss Score
11.79
Exon sequences
Seq C1 exon
ACGGTACGGTGCAGTGCGGTGGGTTGCCGTGCCATGGGTCCGAGCGAGGCGGTGGTGCTGGGGCTGCTGCTGGGCGCGGCGGAGTGCG
Seq A exon
GTGAGTGCTGCGGGATCGGGCTGCCCCCGGCACCGGGACTCGCGGCTCCTCGCTTCCCGACGCCGGGGCTGCGTCCGCGGGACCCCCACCCGCGGCTCACGGCTCCGACGCCGTCTGTCCCCGCAG
Seq C2 exon
GGTCGCACTCTCTGCGGTACTTCATGACCGGGATGACGGATCCCGGCCCCGGCATGCCGCAGTTCGTGATCGTCGGGTACGTGGATGGCGAACTCTTCGGGAAGTACGACAGTAAGAGCCGGTGGGTGCACCCCATTGTGGAGAAGCTGCCGCAGGAGGACCAGGAGCACTGGGACACACAGACCCTGAAGGCCCGGGAGGGTGAGCTGGAGTTCTCCGAGGGGCTGCACAGGCTGCAGGTGCGCTACAACAGAAGTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000024344:ENSGALT00000041152:1
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=0.114
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
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTGCCGTGCCATGGGTC
R:
TTCAGGGTCTGTGTGTCCCAG
Band lengths:
256-382
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]