GgaINT0125856 @ galGal3
Intron Retention
Gene
ENSGALG00000004180 | TOR1B
Description
NA
Coordinates
chr17:6252934-6253834:+
Coord C1 exon
chr17:6252934-6253061
Coord A exon
chr17:6253062-6253366
Coord C2 exon
chr17:6253367-6253834
Length
305 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGT
5' ss Score
9.49
3' ss Seq
CCTTCCTTCAACTCCTGCAGGTG
3' ss Score
10.92
Exon sequences
Seq C1 exon
CAATGCTGGTGGTGACTTAATTAATAAAGCAGCTCTTGACTTCTGGACCAGTGGGAAGCGCAGGGAAGATATTCAGCTGAAAGACCTTGAGCCCATGCTGTCTGTGGGAGTCTTCAATAACAAGAACA
Seq A exon
GTAAGTCACTTTCCACTAGAAAATGAGGAATTGCTTTACTTCACACCACAGGGTTAATCTGAGCAATCTGCACCTCACCTACCCTGGCTCTGCACTGCTTTTTTTGACCCCCACCTTCCTCAGTGCCCCACCACCAGGCCCTTTGGTTCTTCCACTTCAGTGTCATCTCCTCCCAGGGAAGTTTTCATTACAGAAGCTACTCACGGGTAGATAAACCTCCTTGTGAATCCAGTCTGGTCTGCAGAGCCTACCCAAGTTGAGAGAATGCCCTTCCTTTATCTTTTTCCTTCCTTCAACTCCTGCAG
Seq C2 exon
GTGGACTGTGGCACAGCAGCCTCATCGACAGGAACCTCATTGACTACTTTGTTCCCTTCCTGCCCCTGGAGCACAAGCACGTGAAGATGTGTGTGCGGGCTGAGATGATCGCCCGTGGGCACGAAGTCGATGAGAAGGTTGTTGAGGCAGTGGCAGATGAAATGACATACTTCCCAAAAGAAGCAAGGATCTACTCCGATAAAGGCTGCAAGACTGTACAGGCCAAGCTGGACATCCACGAAGACATTGCAAAAGCCATGGACTGATGACCCTTCACCTCTCCAAAGCACTTTCAGAGCCTTTGGAAACTTGTCTATTTGCACTTAAGCTTTATTATTTTTTTTTTTTACTATTGCAGGGAATGTGGTGAAGATCTTAGAGTGAGTGGTGTGGGCTTTTAAGCTTTTGTTTTTTAACATAAAATCCCACTGTTCATCTCTAAACTGGCTGGTATCCAAATATTGCCCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004180:ENSGALT00000034684:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
CAGCTGAAAGACCTTGAGCCC
R:
GTGCTTTGGAGAGGTGAAGGG
Band lengths:
345-650
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]