GgaINT0035824 @ galGal3
Intron Retention
Gene
ENSGALG00000004424 | SEC16B
Description
NA
Coordinates
chr8:6935065-6935999:+
Coord C1 exon
chr8:6935065-6935134
Coord A exon
chr8:6935135-6935798
Coord C2 exon
chr8:6935799-6935999
Length
664 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
GCTTCAGCTGTCTTTTCTAGGCA
3' ss Score
7.6
Exon sequences
Seq C1 exon
GTGCAGGATGACCTCGCTCCAGAGGTGGCACTGACCCAGCCAGAGCCCTGGGATACTACAGCCACCCCAG
Seq A exon
GTAAGGGAACAAAGCCCAGGGGGCCCCAGCCTAGCAGCTAAATTCCTTGAGCTCCAGGTTCCAGCATGGGTGCTGCGTGCCCATCCACTGGGTGCCCCATGGAGAAGCTATAGCCACCTCCATCCATGCAATGCCTACGTGCTCCTGGCTGCCTGGTTGGCTCTGGTTTCCTGGAGATGCCAGCACTGATGGGTGGAGGACTGATGCAGATAGGATAAAAATGACAAATCTCTCTGAGCCGTTTCTTCCTATCAGCTTTCCTCACTGCTGCCAAATTCTCTTTTGAGGAGCTCTGCCTGGCAGTAAAAAGGATCATCAATCCTGATTGCCTCCTGCTGCTATCGGGGCTGAGACTATGATCATCCCTGTCTGGAAAAGGAAACCATTGCAGGTGGCTTGGGATGACTCCTTCAAGCCATGGCCTCAGCAGTACCCCTGCTTTCCTTGCACCTGGGGCCTCCCTGCATTGCGTCAGGGTCCTGCCTGGTGGTACCTGTGGGCAGTGGGACAGAAGATGCCCTATGAATGGCACATTCCATGTTGTCCTGGGGTCCCTGTTCACCCTGGCAGCTCCTACTGATGTGTAATGGAGAAGGAGAAAACCCTCTGCACCAGCCCTGATGGAACTGCAAACGGTGCTGTGAGCTTCAGCTGTCTTTTCTAG
Seq C2 exon
GCAGAGAGATGGTCCATGAGCAGCCCCATAGCGATGGCCCCCACGATGAGCAGTGGCACCAGCCCCCTGTGCCACTGCAGGGACCTGATCCCCACCAGGATGTGTCCATCCCGCCCCTGGAGGTTGCAGTGTTGGGTGTGGGGCCGATCTCCCAGGAAGAGCTTTGCACTGAGCCCTCTCTGCAGGCAGTGCCAACAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004424:ENSGALT00000007046:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.792 A=NA C2=0.971
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGCAGGATGACCTCGCTC
R:
GCACTGCCTGCAGAGAGG
Band lengths:
262-926
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]