GgaINT0022381 @ galGal3
Intron Retention
Gene
ENSGALG00000002521 | F1P543_CHICK
Description
NA
Coordinates
chr12:2266880-2267149:-
Coord C1 exon
chr12:2267043-2267149
Coord A exon
chr12:2266967-2267042
Coord C2 exon
chr12:2266880-2266966
Length
76 bp
Sequences
Splice sites
5' ss Seq
AAGGTACCG
5' ss Score
9.67
3' ss Seq
CCCCACGCTGTTCCCTGCAGGAC
3' ss Score
10.08
Exon sequences
Seq C1 exon
CGTCCCTAGAGCCTGGACAGCTGCTGGAACTCGTGCAAGAGCTGGCGCGGTGGAAACAGGAGCTAGGAGGGGGCACAGAGGCAATGGACCCCATCCACTATGACAAG
Seq A exon
GTACCGCAGCTGCAGGGCTCGGGGAGGTGGCACTGCTTCCCATGGGACGCCCACGTCCCCACGCTGTTCCCTGCAG
Seq C2 exon
GACGATGACCTCCACTTGAGCTTCATCACAGCTGCATCCAATCTGCGCGCAGAGAACTACAGCATCCCGCCTGCCGACCGGCTGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002521:ENSGALT00000003973:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.028 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0213416=UBACT=PD(1.4=2.8),PF0213416=UBACT=PU(4.5=8.3)
A:
NA
C2:
PF0213416=UBACT=FE(41.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTAGAGCCTGGACAGCTGCT
R:
GGGATGCTGTAGTTCTCTGCG
Band lengths:
170-246
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]