GgaINT0129150 @ galGal3
Intron Retention
Description
NA
Coordinates
chr18:7928251-7929079:-
Coord C1 exon
chr18:7928913-7929079
Coord A exon
chr18:7928361-7928912
Coord C2 exon
chr18:7928251-7928360
Length
552 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGC
5' ss Score
8.69
3' ss Seq
GCTTTTGGCTTTCGCATCAGGCT
3' ss Score
5.79
Exon sequences
Seq C1 exon
TTTGCTGCTCTATGTGGTTTTCCTGCTCCCCCTGATTTTGCAACTGGTACTGATGACTGTCTGGCAGAGCATGGGTGCCTGGGAGCTGTGCTCGTCGCGGTACTTCCTGCCCCTGCGGACCAGGGCTCATGATGACACCACCAACCTGCTGGTGCTCAACAGCACCG
Seq A exon
GTGAGCCGGGCTCCTCGTGATTTGATGGGCTGTAAATGAAGCCTGATGATGCTTCAGTAGGTGACATCCTAATGCAATGACATGGAAAGGGATATCCCAGCGGGTGGGATGAGAGGGGATCCAGTCCTTCCTCTGCCTCATATCCTGACCTCCACCCAAATGGTTTCTGCTCCTTCAAAATTAATCCTGATCAGATTAACAGTCTTCTTCCAGAATTCTACCTTTGACTTTCCTTTGAGTGGATGCAATTTCACGTTATTTTGCCAGAGAATGATACTGTTGGCTTCGTCAGACCATCATCAGGAGAATACATTTGCAACTCAGTGAAGGAATAAAAGGGGGGAATAAAGCAATGTTTCGGTCACTGAAACTGTCATCCATTAATGTCACAAAAATTACTGTGCAGTGACCCAATTCATACGTGCTGTCTGGCTTCCACGGCCATTAGATTTTCTCTGGTTATGTTTAGTGGTCATGGATTCAAAAAAAAAGCATGAAAGATTCTTCTGTTGCTCACTATTATGATTTCTCTGCTTTTGGCTTTCGCATCAG
Seq C2 exon
GCTCAGGCATTGAGGACTTCATCCACGCTCTTGAGAGCCAAGATCTCGCAGTGGAAATTACAAGCAAGGAAAATATCACAGAGGAGCTGAAATACAATGGGGCCATTAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000021399:ENSGALT00000006909:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=PU(15.4=96.5)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(10.1=100)
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:
TGCTGCTCTATGTGGTTTTCCT
R:
TGGCCCCATTGTATTTCAGCT
Band lengths:
270-822
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]