GgaINT0096548 @ galGal3
Intron Retention
Gene
ENSGALG00000019647 | SP8
Description
NA
Coordinates
chr2:30188813-30190384:-
Coord C1 exon
chr2:30190364-30190384
Coord A exon
chr2:30189464-30190363
Coord C2 exon
chr2:30188813-30189463
Length
900 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGT
5' ss Score
7.93
3' ss Seq
CGTCCCCTCTGTGCCCGCAGGAG
3' ss Score
12.31
Exon sequences
Seq C1 exon
ATGGCAACTTCACTTCTAGGG
Seq A exon
GTGAGTCTAAGGATTTTTTCTCTTGCTGGTTTAATTAGTTTCTTTTTATTGTCGATTGGAGGGGGTTAAAATAACCCCTGTCTTGACCGGGGCTATCAGTCTCCTCTATTGAGCCTTTTTTTTTTTTTTTTCCTCCCTTTCATTCTTTTTTTTTTTTTTTTTTTTAAACTTAAGTACAAGTGAGTTTCGGAGAAAAGAAAGAGCGAGAGGGGGAAAAGGGGCAGAGTCTCTTTGCAGCGCGCAGGAAAAGGTTTAAGGGCATTTGTAGGAACAGCCCCCAGCGCCCGGGCTGAGCGCTGTGCCCGCACCGCGGCCTTTCTCCGCACATGTGGCTGTTGGAAGGGAAGCCCCGGCACCGCCGCTTCTGTCGGGCGCGGTTTCTAATTTGCGACCGAGTGTGGCTTTTTATTTCCCTTTAAAATAACACAGCCCGCCGTGTCCAGCAGGTATGTCGAACTCGTGTATACGTACAGATGTACGGATGTTAAATTGATGTATATATTTAGTTACGGTTGGTACGTGAGGCTCTTTAAGGAAGCCTTTTCAATTTATTTATTTATTTTTTAAAAATTATTTGTTTGATAACACGGCGCTTCACTACTTACGAACCACCGCATCTACCCCGAGGACCGGGAAGCGCCGGGTCCCGGGGAAGGGAACGGCACGAACGCAGCCGTTGCCGCCGGGCTGGTGGCAGCTTTTAAGCTATATCAAAGCTGCGGCACCAGAAGCAACTTTTCCCCCTCTCTTTCCTCCGAGCTCCCGGGGCAGGAGGACCGGCAGCGGATCCGCGGGACCCAGGGCCGGGCCGGGCCGGGGCGGCGGGCGGGCGGATGGCGGTGGCGGTGCCGCTCGGTGCCTGACGCCGGCGGGACGCCCCCGTCCCCTCTGTGCCCGCAG
Seq C2 exon
GAGGAACCGCGGGTTGGCTCCACGCCGCTGGCCATGCTCGCCGCGACCTGCAACAAGATCGGCAGCCCCAGTCCCTCGCCGTCCGCCCTCTCGGACAGCGCGTCCTCCTTCGGCAAAGGCTTCCATCCCTGGAAACGCTCCTCCTCCTCCTCTTCGGCCTCAGCCGGCAGCTGCGGTGCCGTGGGCTCCGGCCTCCCGGGCTTCGGCGTGGCGGGCGCGGCGCGGAACGGCTCCTCGGCGGCAGCGGCGGCGGCGGCGGCGGCGGCGGCCGCGCTCGTCTCGGACTCGTTCAGCTGCGGCGGCTCTCCGGGCTCCAGCGCCTTCTCGCTGACCTCCAGCGGCGCGGCGGCCGCCAGCTCTCCCTTCGCCAACGACTACTCCGTGTTCCAGGCGCCGGGCAGCGCCGGCGGCGGCGGCGGCGGGGGAGGCGGCGGCGGCGGGGCGGCGGGGCAGGAGGCGGCTCACCAGCCCGTCTTCATCTCCAAGGTGCACGCGTCGGTGGAGGGGCTGCAGGGCATCTACCCGCGGGTGGGCATGGCGCACCCCTACGAGTCGTGGTTCAAGCCCTCGCACCCGGGGCTGGCGGCCGGCGAGGTGGGCTCGGCGGGCGCCTCCAGCTGGTGGGACGTGGGCGCGGGCTGGATCGACGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000019647:ENSGALT00000033215:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.111
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGGCAACTTCACTTCTAGGG
R:
TGGAGGTCAGCGAGAAGGC
Band lengths:
358-1258
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]