GgaINT0126246 @ galGal3
Intron Retention
Gene
ENSGALG00000002364 | SEC16A
Description
NA
Coordinates
chr17:8556532-8557240:+
Coord C1 exon
chr17:8556532-8556690
Coord A exon
chr17:8556691-8557162
Coord C2 exon
chr17:8557163-8557240
Length
472 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAC
5' ss Score
8.14
3' ss Seq
CAGCTGTATTTCTATTTTAGACT
3' ss Score
7.69
Exon sequences
Seq C1 exon
GGCTATGGACAGAGATCCCGGACAACTTCAGAGTCCTCTGCTCATTCTGTGGGACGAGAGAGATCTAACTCTGCAGCAAAACAGCCACCTCCTTCTCCACCTGTTCCAGTAGGGAAAGAGACTAAGAAAGAAGTGAAAAAAGAGCCAGCATCTAGAAAG
Seq A exon
GTAAACTTGATAAGGAAGGTAGTAAGGGGAGATTCTTGGAGTATTTGGTCAGTCTCAGTCCAGGGCACTGATTCCAGAGCACCTGAGTAAACTGCCAGGTGGTGTTTTTTGTCTTGGCTATTGCAACCTCTGGATGTTATCATATTCCCATATTGTAGCTTGTGCTACTGCTGCCTGCCTTTATAAGCACTTCAGCATTGCACTACTAGCTGCTTGTTTTCATTGGGAATGAATTCAAAGCAACTTCCCTTCGTTTATAAACAATTAAAACCCTTTTCTTTCATCCAACCCCTACCACCAAAGTGGTGGTATGTCTATGTTCTCAGTATTTGTTTGTTTCTTTATTGTTCTTTTTTTCAAATTAGAGTTGAAGTCCCTAACAGAAAGTGAATTACTGCATGAAATTTTCTTTTAAACTCCCTGTAAAGACAGCGTTGAGAGTACTATCTGAACAGCTGTATTTCTATTTTAG
Seq C2 exon
ACTGGTGCAAACTGGTTTCGCTGGCTGATGGGGAAAGGAAAGAATGAAGCTCACCTTCCAGACGACAAGAACAAATCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002364:ENSGALT00000003726:24
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion 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:
GCTATGGACAGAGATCCCGGA
R:
TGTTCTTGTCGTCTGGAAGGTG
Band lengths:
231-703
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]