GgaINT0127458 @ galGal3
Intron Retention
Description
NA
Coordinates
chr18:7956879-7957361:-
Coord C1 exon
chr18:7957205-7957361
Coord A exon
chr18:7956938-7957204
Coord C2 exon
chr18:7956879-7956937
Length
267 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGG
5' ss Score
9.99
3' ss Seq
CTTGCTTACCTTTCCTTTAGACT
3' ss Score
9.68
Exon sequences
Seq C1 exon
GCAAATACGGCGTGCCGTACCCCCCGCTGTTCTTTCTGAGGCCGTCGTATTGGCTGCAGTGGGGCAGCAAGCGCAGCACCCAGCCTGACCCCATCCCTGTCCCTGGCTGTGACACCGAGCCCATGCCTGAGGGCTTCGAGGGGAAGGAGGCCATCAG
Seq A exon
GTATGGAGAGCAGCTCTGTATGACGTGAGCATGGCCATAACACCCTGGGGAATGGATTAGAACTTGAAGTGACTCCTTCAGATAGAGTTACAGAATCATAGGGGCTGGCAGGGTCCTCTGGGGATGTGTTCATCCAACCCTTGGTGCTGTTGGGCAGGTACAGTGTGGGGAGGAGGCTGAAAAATGTTCTTCCCACTGTTTCCAAAGGTTACTTCCATGTCAAAATGGTGCGATCTATTAATAACAGCTTGCTTACCTTTCCTTTAG
Seq C2 exon
ACTATACAACATTAGAAAAACATACAAGAGGAAGGGCAAGATAACCGAAGCTTTAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000021391:ENSGALT00000034523:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.208 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0000522=ABC_tran=PU(7.7=9.5)
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:
CCCCCGCTGTTCTTTCTGAG
R:
CTCTTAAAGCTTCGGTTATCTTGCC
Band lengths:
196-463
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]