GgaINT0129720 @ galGal3
Intron Retention
Description
NA
Coordinates
chr18:7951877-7952507:-
Coord C1 exon
chr18:7952348-7952507
Coord A exon
chr18:7952047-7952347
Coord C2 exon
chr18:7951877-7952046
Length
301 bp
Sequences
Splice sites
5' ss Seq
CGTGTAAGC
5' ss Score
5.25
3' ss Seq
TGGTCTATTTTTCCATCTAGATT
3' ss Score
8.32
Exon sequences
Seq C1 exon
GTGCAGAAAACCTGAAGGAGAGTGACCAGAGCTTCCTGGGCTTTTCTGAACCAGCACACATAGCAGCAAGCGGCATGGAGCTCTGGAGGCAGCAGGTCCTCGCCGTGGCCAGAGTTCGTTTCTACAGACTGAGGCATGATGGAAAGCTTCTCCGGTCCGT
Seq A exon
GTAAGCATGGAGCCCTGAGCCCTGCAGCCCCCGTACTGGCTTGGGGCTTTGCAGAGGTTTTGGTCATTCCCTGGGTTGACTGAGGGAAAGCTTAAAAACTGCTGGAGCAGTTTGGAAGCTGAGAAGTAGGTGTTGGTTGTGTAAAAGTTGCAGTGGTAAAAACGGAACTTCCTGATAGAGCTCTGAATTGTTTAAGTATATTCCTCAGCTTTAAATTTCTTCTTGATTTTGCTACATGAATCACACCAGTGCTTAACGGTGCAGTTCCCCGGAGCCACTCATGGTCTATTTTTCCATCTAG
Seq C2 exon
ATTGCTGTTCTTTGGAGTATTTATCATCCAGATGCTCATGGTTTTCTTTGGTTTTGAACTATGGAACAAATCCATCTCAGAACTGACAGCCAGCAAGTATTTTCTTCCTGCTCAGCCTCCCACTCAAACCCAAAGCAAGTCAACAAATCTTCTCATCTTCAATGACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000021393:ENSGALT00000006911:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF126982=ABC2_membrane_3=PU(18.1=60.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGCAGAAAACCTGAAGGAGAGT
R:
CTGTGTCATTGAAGATGAGAAGATT
Band lengths:
330-631
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]