GgaINT0054956 @ galGal3
Intron Retention
Description
NA
Coordinates
chr5:15871311-15872244:-
Coord C1 exon
chr5:15872131-15872244
Coord A exon
chr5:15871491-15872130
Coord C2 exon
chr5:15871311-15871490
Length
640 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAGT
5' ss Score
9.65
3' ss Seq
TTTTTCATTTCTTGTCCCAGAAC
3' ss Score
9.02
Exon sequences
Seq C1 exon
AACTACTGTGGCAGAAAAGGTCTGAATCAGGGAACCTTCAGAGTCATCACTGAGAACATTCCATGTGGCACAACAGGAACCACTTGCTCCAAGTCTATTAAAGTTTTCCTGGGG
Seq A exon
GTAAGTATGTTCTTCAGTAAGTTTCACCCCAAGCCTAATTTGCTGGAAGGACTGTTGGGTTGTCCTAGACAGACTGTATCATAAAAGCGTCCCCCAAGACAGTAGAAATGTTATCGCACTTCCATGCTCACTGCCAACAATTCTGCCAGGGAAAGCAATGGAGGGATTTTTGAATACAACATTTTGATGATAATATAAAATATCAAAAATGGTTACTAACAATATAGAAAACTGGACCTAACAGGTGACTTTTTAAATCAGTGTACAGTCAGCAAATGTACAATTAGAGTGGCATGGTTAAAATGGTAGTTTACAAGTTGTATAATTAGAAAGATTATTATGGTGGAAAGAGGTAATCAAAGATAAATGAAATGCTCACCTATGTCCTAGGCTCACAATAGAAAACTCCAAAGGGAGCAATCTCCAGAAAGAGATCCTTCCCTAGTGGCAGTCAGCCCTTAAATGAGGTCTAGGAGAGGTGCAGCCAGGCTTCACCCCTTCTGGTCACACAGCTGAATTGCCTTCTCCTGTGCTCCTGTGTCTGACTCAGTGCTTGCCTCAGGTGATCAATCAGTGGTTGAGGCCATGACTCAACAGTTCCCATACAATCAGTCTCTAACTTTTTCATTTCTTGTCCCAG
Seq C2 exon
AACTATGAGCTGGTACTCAGTGATGGACACTCTGATGTCATCCAGAGGTCACCTGGAGGAGAAATGCCATTTCAAATCCGTTCCATGGGCATCTACATGGTCGTTGACACTACTGTTGGTCTGATACTCATGTGGGACAAGAAAACCAGTATATTCATCAAACTTAGTCCCAGCTTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006740:ENSGALT00000010867:23
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:
PF0009420=VWD=FE(24.5=100)
A:
NA
C2:
PF0009420=VWD=FE(39.1=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:
AACTACTGTGGCAGAAAAGGTCT
R:
CTGAAAGCTGGGACTAAGTTTGA
Band lengths:
294-934
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]