GgaINT0143164 @ galGal3
Intron Retention
Gene
ENSGALG00000000252 | Q8AV15_CHICK
Description
NA
Coordinates
chr27:1542883-1543417:-
Coord C1 exon
chr27:1543200-1543417
Coord A exon
chr27:1543038-1543199
Coord C2 exon
chr27:1542883-1543037
Length
162 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
GGCTCTGTGTCCACCCCCAGGCT
3' ss Score
8.47
Exon sequences
Seq C1 exon
AAAGTTTGTTCCCAACTCATCTCCTGTGGAGCATCCCCTGGCCCTGCAGCACCACCCTGACCATCCTGAATCCCCCCTCCTGTTGCAGAACCCCCTTTCCAGTGACAACGCCTCATCCCTGTGCAGCACTGTGGACTACAAACCACCGCTGCCCGAGGAGGAGGAGGTGGCCGAAGAGGCTGAAGAGAGCAATGAGCCCGAGGAGTGCTTCACTGAAG
Seq A exon
GTGAGAGCTATGAGCACCTTGGAGAGGGGTGTTCCAAAACTCCAAATTCTCCCATTTCCATGGAGATGTTTCCCAGGAGCGGACATCTCCAAATGGGGTTAAAATGCTATCACGGCGCAAATAGCAGTGGGGAGGTGACCCAGGCTCTGTGTCCACCCCCAG
Seq C2 exon
GCTGCGTCAAGAGGTTTCCCTGTCTCCACGTGGACATCACCAGTGACAGAGGGAAGATCTGGTGGAACATTCGTAAAACCTGCTTCCTCATCGTGGAGCACGACTGGTTTGAGACCTTCATCGTCTTCATGATCCTCCTCAGCAGCGGGGCGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000252:ENSGALT00000040680:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.397 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF065128=Na_trans_assoc=PU(49.4=97.8)
A:
NA
C2:
PF065128=Na_trans_assoc=PD(49.4=84.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAACCCCCTTTCCAGTGACA
R:
GTCTCAAACCAGTCGTGCTCC
Band lengths:
247-409
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]