GgaINT0022375 @ galGal3
Intron Retention
Gene
ENSGALG00000002521 | F1P543_CHICK
Description
NA
Coordinates
chr12:2268212-2268652:-
Coord C1 exon
chr12:2268487-2268652
Coord A exon
chr12:2268409-2268486
Coord C2 exon
chr12:2268212-2268408
Length
78 bp
Sequences
Splice sites
5' ss Seq
CCCGTGAGT
5' ss Score
8.4
3' ss Seq
TCCCCCCCTACTGCCCGCAGGCG
3' ss Score
10.28
Exon sequences
Seq C1 exon
AAGCCGAAGGCGGAGGTGGCTGCAGCCGCTGTGCGGCTCATCAACCCGGACATCAAAGTGACAGCGCACCAGGCTCAGCTGGGCCCCGGCACCGAGAAGCTCTTTGGGAGCACCTTCTTTCGGCGGCTGGACGGCGCTGTCAGTGCCCTGGACACGCTGACGGCCC
Seq A exon
GTGAGTGCTTAGGTGGGGCAGGGGTGAGCCCTGTCTCCATGCTACCAGGATGGATGCATCCCCCCCTACTGCCCGCAG
Seq C2 exon
GCGCCTACCTGGAGAGCTGCTGCATCCGCTCCCGCACGGCGCTGCTGGACACGGGCACAGAGGGGGCAAAGGGCAACGTGCTGGCCATGGTGCCCCCCCTGAGCCAGCAGCTGGAGCCAGGCAGCGACCCCGCGGATGGGAGCTTCCCACTGTGCACGCTGCGCTTCTTCCCCTGTGCCATCGAGCATACGCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002521:ENSGALT00000003973:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.152
Domain overlap (PFAM):
C1:
PF0089916=ThiF=FE(37.9=100)
A:
NA
C2:
PF0089916=ThiF=PD(20.7=45.5),PF105854=UBA_e1_thiolCys=PU(70.7=43.9)
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:
CACCGAGAAGCTCTTTGGGAG
R:
ACCATGGCCAGCACGTTG
Band lengths:
168-246
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]