GgaINT0126241 @ galGal3
Intron Retention
Gene
ENSGALG00000002364 | SEC16A
Description
NA
Coordinates
chr17:8553177-8553540:+
Coord C1 exon
chr17:8553177-8553317
Coord A exon
chr17:8553318-8553426
Coord C2 exon
chr17:8553427-8553540
Length
109 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACG
5' ss Score
10.52
3' ss Seq
CCAGTGCTTCCTTTTTCTAGATG
3' ss Score
9.25
Exon sequences
Seq C1 exon
GTTTTCAAATTCATCTATGCTTGCCGACTAGCTGAAATGGGACTTGCTGCTCAGGCTTTCCATTACTGTGAAGTGATTTCCAGAACTGTCCTTAAAGATCCACAGTACTATTCACCTGTACTAATTGGCCAGCTAATCCAG
Seq A exon
GTAACGTAGGGAAGAACTACATATTAGTAGCTTTGTATTGTAGGTGGTGAGCTGTGGGTAAAGTTACCTTTTGTGGACTGGTTAACTTTCCAGTGCTTCCTTTTTCTAG
Seq C2 exon
ATGTCATCGCAGCTGCGCCTGTTTGATCCTCAGATAAAGGAGAAACCAGACCAGGAATCCTTCATTGAACCTTCATGGTTAGTAAGGCTTCGACATGTGGATGGACAGATCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002364:ENSGALT00000003726:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.026
Domain overlap (PFAM):
C1:
PF129312=Sec16_C=FE(17.0=100)
A:
NA
C2:
PF129312=Sec16_C=FE(13.7=100)
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:
CATCTATGCTTGCCGACTAGCT
R:
TGATCTGTCCATCCACATGTCG
Band lengths:
242-351
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]