GgaINT0035807 @ galGal3
Intron Retention
Gene
ENSGALG00000004424 | SEC16B
Description
NA
Coordinates
chr8:6926277-6926910:+
Coord C1 exon
chr8:6926277-6926305
Coord A exon
chr8:6926306-6926663
Coord C2 exon
chr8:6926664-6926910
Length
358 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGT
5' ss Score
6.99
3' ss Seq
ATGGGTCTTGTTGCCTGCAGGCC
3' ss Score
9.11
Exon sequences
Seq C1 exon
GGCGCCGGGGAGCGGAAGTGGGGCAGCAG
Seq A exon
GTGTGTGTGTGGCTGGTGGGGGGTGGTGGGGACCCCCGTCCTACGTGGGATCCAGGGGACCTGCGCCAGGGTGGGAGGACTTGCTGGGTCCAGCTGGGCCCAGAATGACCCCCAGATGCATTAAATTCTGAGTGCGAGGGGGCGATGTGTGGTTTGGTGATGGCTCCTTGCATCCTGGTGTTTTAGGAAAGCTTCAGGTGGAACCAAAAGGGAAAATACATGTTTTACCCCTGCTTCTGCTGTAGGCGTTTTGGGAAGAAAGGACGGCAGTGGGGTCGGGAGGTGGGTGGAAGGTTTACAGAGGTTTTGGGGTGGGTGGAGAGCTGAAACCTGCAGGGATGGGTCTTGTTGCCTGCAG
Seq C2 exon
GCCATTGGAGCCGTTGGATCTGCTGCATGGAGCCCTGGGACCCACCACAGCTGCCCCCAGTGCGGCACAGCCATGCTGCTGGCAGTGTGCGAGCAGAAGGCCGCCATGGGACCCCACCGCCCTGGAGGCCCATCATCTCTGACCCCCTGCCTCGTACTGACTCCTGGGACCCTGACAGAGACCTGCACTGGCCAGCGTCCCAGAATGAGAGCTATGAGAGCGGCCATGCCTTCCGGGCCTACTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004424:ENSGALT00000007046:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.932
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion 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:
GGAGCGGAAGTGGGGCAG
R:
CTGGAGTAGGCCCGGAAG
Band lengths:
268-626
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]