GgaINT0022380 @ galGal3
Intron Retention
Gene
ENSGALG00000002521 | F1P543_CHICK
Description
NA
Coordinates
chr12:2267043-2267432:-
Coord C1 exon
chr12:2267246-2267432
Coord A exon
chr12:2267150-2267245
Coord C2 exon
chr12:2267043-2267149
Length
96 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGG
5' ss Score
9.08
3' ss Seq
TTCCTGGCCTGTTCCCCCTGCGT
3' ss Score
-0.55
Exon sequences
Seq C1 exon
GACACCCACCTGGCATACGTGGAGGCTGCTGCCCACCTTCTGGCTCACACCTACAGGCTGCCATCCTGCGGTGACCGGGTGGCCACGCGGGATGTGCTCTGCCACACGGTGCTGCCACCCTTCGTGCCCAAGGATGGGCGCTACGTCCCCACGGTGGAGGGCGTGGAAGAGGTGGAGGAGGCTCTGG
Seq A exon
GTAAGGCTACTGCACGTCTGTGTCCCCAAAGCCTGATGAAGAGGCACGGGCCAGGAGCTGCAGCTGTGATAACGGGTTCCTGGCCTGTTCCCCCTG
Seq C2 exon
CGTCCCTAGAGCCTGGACAGCTGCTGGAACTCGTGCAAGAGCTGGCGCGGTGGAAACAGGAGCTAGGAGGGGGCACAGAGGCAATGGACCCCATCCACTATGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002521:ENSGALT00000003973:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.028
Domain overlap (PFAM):
C1:
PF0213416=UBACT=FE(88.6=100)
A:
NA
C2:
PF0213416=UBACT=PD(1.4=2.8),PF0213416=UBACT=PU(4.5=8.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCTTCTGGCTCACACCTACA
R:
AGCAGCTGTCCAGGCTCTAG
Band lengths:
178-274
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]