GgaINT0126309 @ galGal3
Intron Retention
Description
NA
Coordinates
chr17:2294623-2295662:-
Coord C1 exon
chr17:2295512-2295662
Coord A exon
chr17:2294783-2295511
Coord C2 exon
chr17:2294623-2294782
Length
729 bp
Sequences
Splice sites
5' ss Seq
GAAGTGAGT
5' ss Score
7.97
3' ss Seq
TCTTTTTCTTTTTTGTCTAGCCT
3' ss Score
7.65
Exon sequences
Seq C1 exon
GTCCAGAAATCTCGAACTACTCACATTCTCCTCAGAAAGTAGGAAAGAGCTTGGATGCATGTTTGAACTGGGCCCAGAGCAAGATCCCGGCAGAGCAGCACAGCCAGACTCCCCTGTACCTGGGAGCAACCACCAGCACAAGGCAGCTGAA
Seq A exon
GTGAGTGCAAGCTACAAACCCACACCCAGAGATCAGCACACATCATGCGGATCATTCTGCAAACGAATCTCACCCTGTTTGCTCTACCATGTTTCATCCCTAATCTGCTGGTCAGGTAAACCTTCTTCAGCTCCCCATGCACTCAAGGGGAGTATGGCATGGCTGTGACCACACCACATCCCCCAAGGCAGCTATGAAGATGAGTCTTGCTACTGGTCACTTTTGCAGTGAGGGCCAGGGAAAACATCTGCCAGTCTGGAAGCTGTTTTCAGTTTACGTGACAGCCAACATGAGGCTGCAGAGGTGCTTCTTGTCAGCAGGTTGGGAGCAGCGGTGGGAAGATCCACTTTATGATACATAATTGTGGACACTGCTCTGTCACCTCATTACTGGGAACTATCTGCTTTCAGACACTGGGTGAGAGCAAGGTCTGGAGGGAGAAAGCCAGTGGGGTAAGGCCACAGCATCCCTCAGAGGCAGAAGGTACTAAACTCCCAAATTCTTGAATGGCAGCACAGCTGATCAAATCATATCTCCGTTTTTATTGTGCAGGCTGTTCTTGCCACCAGTGTTGTGCAAGGGCAGAGGGGACCAGCAGCAGGATTATTGTGTCTCTCACCACACTGCTACCCAAAATAGGGAGAACAGCACATGTTCTGAAGCTGTGCCCACCATGGACTGCTCCTGGCAAAGCACAATAAACACGCCTTCTTTTTCTTTTTTGTCTAG
Seq C2 exon
CCTCAGCCATCCCACCCGCTCTGACGATCTCCTTGCAGCCCTGACTGTGGCCCTGAAGTCATCCCCCTTTGACTTTCAGGGGGTACAAATCTTGTCCAGTCCAGATGAGGAAGCATTCAACTGGGTTGCTGTTAACTACGTTCTGGAGAACTTCTTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023909:ENSGALT00000040222:3
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=0.019
Domain overlap (PFAM):
C1:
PF0115012=GDA1_CD39=FE(20.4=100)
A:
NA
C2:
PF0115012=GDA1_CD39=FE(21.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCCAGAAATCTCGAACTACTCACA
R:
ACGTAGTTAACAGCAACCCAGT
Band lengths:
292-1021
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]