GgaINT0143413 @ galGal3
Intron Retention
Description
NA
Coordinates
chr27:3884903-3885806:+
Coord C1 exon
chr27:3884903-3885006
Coord A exon
chr27:3885007-3885712
Coord C2 exon
chr27:3885713-3885806
Length
706 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
3' ss Seq
CCTGATTGCATGTATTCCAGTGC
3' ss Score
5.55
Exon sequences
Seq C1 exon
ACCTGCTACATCTGCGAGGAGCAGGGCAGGGAGAGCAAGGCAGCCTCTGGAGCGTGCATGGCGTGCAACCGGCACGGCTGCCGGCAAGCTTTCCACGTCACCTG
Seq A exon
GTGAGCTCCATCCCCTCTGCATCAGTCCCAGCTGCTGGTTTTGGGGCTGCAGCACACAGCGGTGTGCAGGGCTTGGGGCAAATCCCCCCCCCCCCCTCCAGTGTGTGTGTTCTGTGTGAGGGGTATCTCACCCGTGCTCTGTTTGCAAGGGGAACTTCCTAACCCTAAGGTCAGAAGGCTGAGGTTTCAGCAAAGCCTTCCCCTATGAGAACGAAGGCTGGGGATTTCCCTAGGACTGTGTGGAATCCAAGGAGAGGAGGGATGAGTCATAAGCCAGGAATGTTCCTTTTCCAGCCCAGCACATACAGGAGCATCATCTAGATGATGTGATGTTAAGGGCTGATATCCTCCTGTACCCCTGCAGCCTGAAAGCAGCGTTGCCCATCAGCAGAACGTGGGGATTCCCAGCTTGGTGCAGATGTTCCTCGTGTGCCTTCTGCTGGAACTGCTGCTGCTCCCTTAAGAGAAGCAAAAATTGCTCAGCAGTTTGGTAGAAAAAGAAGTGGCAGTTTTAAAGGTCTTCATATGGATTGAAAACAGTCTGAGCTCTGCTCCCCCATCCACTTCCCCATAAACCATTAGCCCAGCTACACGGGAGGCTTCACGACCTTCCCTGGGTACCCTGAACTGTTGTTTGCCCGTTTATGAGGTATGATGTCAGGCTGTGTAATGGCTGTTATCCTCCTCCTGATTGCATGTATTCCAG
Seq C2 exon
TGCCCAGATGGCCGGCCTCCTGTGTGAGGAGGAAGTCCTGGAAGTTGACAATGTCAAGTATTGCGGCTACTGCAAGTACCACTTCAATAAGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001574:ENSGALT00000002392:4
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:
PF138321=zf-HC5HC2H_2=FE(28.8=100),PF045929=SelP_N=PU(7.6=25.7)
A:
NA
C2:
PF138321=zf-HC5HC2H_2=PD(22.9=84.4),PF045929=SelP_N=FE(26.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCTGCTACATCTGCGAGGAG
R:
CATCTTATTGAAGTGGTACTTGCAGT
Band lengths:
198-904
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]