GgaINT0124856 @ galGal3
Intron Retention
Gene
ENSGALG00000021274 | F1NJE7_CHICK
Description
NA
Coordinates
chr17:1326726-1327283:-
Coord C1 exon
chr17:1327025-1327283
Coord A exon
chr17:1326837-1327024
Coord C2 exon
chr17:1326726-1326836
Length
188 bp
Sequences
Splice sites
5' ss Seq
TTTGTAAGG
5' ss Score
3.89
3' ss Seq
TTCTACCTCTTGCCTTTCAGGCC
3' ss Score
10.73
Exon sequences
Seq C1 exon
CACGCTAGTTGAACATCCTTGCTACCCCAAAGACTACAAGGAAACCATCTCGCTGTCTTCCTTCCGCACCAGCCCCTGCACCAACCAGAGTGACCCACGCCTGCCTCTCGATGACAGAAACGTGACCCTGGAGGGCAGGAGCAATGCCAGCGGGTGTTTAGTCGCTGTCAAGAAGCTCTTCAACTTCTCGGCATGTGGACAGAGCCAGGACTGCTCCTTCGATGGCATCTACCAGCCCCCCGTCAGCGGGCAGTTCTTT
Seq A exon
GTAAGGCAAACCCCGTCCTCCTCCCCCCAGCTGTGTGTCCCCCCCCAGTGCTGCAGTGTCCCGCTGAGCCCCGTGCTGCTGTCACCTCCCTGCAGCAAAGTGGGGGCATGCAAGCAGGCCTTCCTGCTTGGAGGGAGAAGGGCATCCCTCACTGTAACTCACTGGTATTTCTACCTCTTGCCTTTCAG
Seq C2 exon
GCCTTTTCTGCTTTTTACTACAACTTCAAGTTTCTCAACCTGACGGAGGGACAGTCACTGGCCACCGTCAGGGAGACCATTGAGCATTTCTGTGCAAGAACCTGGGAGGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000021274:ENSGALT00000014517:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.057 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0115012=GDA1_CD39=FE(20.0=100)
A:
NA
C2:
PF0115012=GDA1_CD39=FE(8.4=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:
GACAGAAACGTGACCCTGGAG
R:
ATCCTCCCAGGTTCTTGCACA
Band lengths:
258-446
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]