GgaINT0127079 @ galGal3
Intron Retention
Description
NA
Coordinates
chr18:7945690-7946625:-
Coord C1 exon
chr18:7946534-7946625
Coord A exon
chr18:7945839-7946533
Coord C2 exon
chr18:7945690-7945838
Length
695 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGA
5' ss Score
8.24
3' ss Seq
TGAGCACTGTGTCTCTGCAGGTG
3' ss Score
10.37
Exon sequences
Seq C1 exon
GAGAGGTGTTAGGTCTGTTAGGACCCAATGGAGCTGGAAAGAGCACAACTATACGCATGGTTTCTGGAGACATAGCAGTGACTGCTGGGGAG
Seq A exon
GTAGGAGGCTCCTTTGGGGCAGCGGGGGGTAGTCTTGATGCTTTCCTAAGTGAAGGATGCGGTAAGAGAAGCAATGCAGCCCTTAATTCAGGGGATTTGTGTTCATGCAACTCTGCACATGGATAGAAGTAAGAAGGAGGTGCTGATGCATGCAGAGCACGTTCTACTTTCTTCAAAATCAATGTTAAAGACTTAAGGGTCTTTACACAGAATCTCCAGGCTTGATTTGAAATCCATCTTGATGTTTCCCAAGCACTGCAAGAAATGTTGACATGTTAAAAAGGAATAACACTCTATGAAAAGCCTTGCAAAACCAGGAAATTGAAAACGAATGTGAGCAGGGTTGAGCCAGTAACAACCCATCATTTAATTATGCACACAGTGATTAATGACACATGCTGGGGGAAAATACCATTGCTATTACAGATCCGGGACTGAGTATTTGAAAGAGAAAAGTGTTACTGGGAGATGATGGTTTCACACTGGTGCTATTCCCCACAGTCTGATGGTAGTAAACACCATTTGTCTTTGCACAAACAGCACTGTGGGTGAGCAGAAGCCGTGGTAGATGGGGGTGGTCACAGGAATGATAGTAGGTTCCTTTTCCTTGAGGACCACATTGCTTCCCTGCAGAAAACACTGGCATTTCCATAGGGCTCACTGCTTTCCCATAGCTGAGCACTGTGTCTCTGCAG
Seq C2 exon
GTGCTACTGCAGGGCTGCAGGGCTGCGGTGCCGGGCTGCTGCCCACAGGAGAACCCGCTGTGGTCGGACCTCACCGTGCTCCAGCATCTGGAGGCCTACGCTGCCGTGCGAGGGGTGAGGGGAGAGGATGCAGCTGTGTTCATCAGCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000021395:ENSGALT00000034529:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=PU(7.6=66.7)
A:
NA
C2:
PF0000522=ABC_tran=FE(46.7=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:
AGAGGTGTTAGGTCTGTTAGGAC
R:
GGCTGATGAACACAGCTGCAT
Band lengths:
239-934
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]