GgaINT0130782 @ galGal3
Intron Retention
Gene
ENSGALG00000002576 | F1NI02_CHICK
Description
NA
Coordinates
chr19:4900240-4900665:-
Coord C1 exon
chr19:4900582-4900665
Coord A exon
chr19:4900321-4900581
Coord C2 exon
chr19:4900240-4900320
Length
261 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
TCTGCCTCTCCTCTTTGCAGGTC
3' ss Score
13.17
Exon sequences
Seq C1 exon
GAGGACAAGGAAGCTGTCTTTGATGTTGTGGACACTCTGACTGCTGTGCTCCAGGTTGCCACGGGAGTGATTTCTACCCTCCAG
Seq A exon
GTAAGGCTTCAGCCTCTCATTACTGAATGTGGTTGGAGGACATATTCTGTGTGTAAGAACTCTAGTTTCTAGTCTAATCTTCATTTTAACATGAAGACTTGCTCACTCCTTCTGCTTGTTATGACCCCCACCACAGGCAGCTCAGATACACTTGGGCAGAAGGGCCTTGGTCCCCTTGATGAAGTCCATTCTTTGAGACCACTAACGTGTCCCCAGGGAGCAGCAAATGATAACCTCTCTCTCTGCCTCTCCTCTTTGCAG
Seq C2 exon
GTCAACAAGGAGAACATGGAGAAGGCTCTGACCCCTGAGTTGCTGTCTACTGATCTGGCTCTCTACTTGGTTCGTAAAGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002576:ENSGALT00000039984:13
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=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF146981=ASL_C2=PU(20.0=51.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGGACAAGGAAGCTGTCTTTGA
R:
CCTTTACGAACCAAGTAGAGAGCC
Band lengths:
164-425
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]