GgaINT0129139 @ galGal3
Intron Retention
Description
NA
Coordinates
chr18:7933391-7934218:-
Coord C1 exon
chr18:7934071-7934218
Coord A exon
chr18:7933563-7934070
Coord C2 exon
chr18:7933391-7933562
Length
508 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGT
5' ss Score
10.45
3' ss Seq
CTTTTATTCTGTCATGCCAGGTA
3' ss Score
8.19
Exon sequences
Seq C1 exon
ATTTTCAGTTTGGAAAGATATGGAATAGGTTTCTCTTTTTCTAACATTATGGAGGAATCATACTTTTTACTTTCGACCTACATTATGCTGACCTTTGACTCGGTCTTGTACATGCTGTTAGCTATCTACTTCGACAAAGTTCTGCAGG
Seq A exon
GTAAGTGTGGCTTATACTTACAGCTGTGCTTTCCTCCTTTTTACGTCTGTATTATATGGACTGTGTGTGACAGCTCCTCACAGAAATGATGGGGCTCAAAACGGATTTTGAACTGAAAAAGAAAGGTTTACACTTCTGAGGGACTGTTCTACCCCTGGCATATTCTGGTAATTCCCAGATCAAAGACAATGAAGTATTTAGTATTTTGTTTTCCCTTCTATTTATACTTACACTGTCATTGAACTGTTCATGAGAAAAATAGGATTATATGAGGGATGCTATTTTTAATTATATGAATGATGAAATTCATTGGAAAGTGCCTTGAAGCCACCTTCTTGTGCTATGTAACCCAACTCCTGTGCACACTGATGAAAATTCCCCAACCTTTTAACGGGACAAAGCACCAATTTTGAGGCAGACAGGTAGTTTTCAGAAGTGTTTACCATAGGATGGCATCCTGATGGTGCCTTCAGTTAACAACACACCATCTTTTATTCTGTCATGCCAG
Seq C2 exon
GTAAATACGGCATCCCAGCTCCACCGCTTTTCTGCCTGAAGCCCTCGTATTGGATGCAGAGCAGGAGGGGCTCTCCTGGGGAAGGGCACAGAGGTGCTGGGAGCCCTGAGGAGCCCCCAGGGGACAACGTGGAGCCAGTGCCCCTCGAGTTCAGGGGGAAAGAGGCTATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000021399:ENSGALT00000006909:8
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=0.414
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=PD(10.9=84.0)
A:
NA
C2:
NO
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:
TCAGTTTGGAAAGATATGGAATAGGT
R:
AGCCTCTTTCCCCCTGAACTC
Band lengths:
311-819
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]