GgaINT0126237 @ galGal3
Intron Retention
Gene
ENSGALG00000002364 | SEC16A
Description
NA
Coordinates
chr17:8551941-8552329:+
Coord C1 exon
chr17:8551941-8552022
Coord A exon
chr17:8552023-8552211
Coord C2 exon
chr17:8552212-8552329
Length
189 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGG
5' ss Score
10.38
3' ss Seq
ATTAATTCTTCTAATTTTAGTGC
3' ss Score
6.63
Exon sequences
Seq C1 exon
ATTTGCCAACAGTCTCCCAATTAATGACCCTCTGCAGACTGTTTACCAGCTCATGTCTGGAAGGATGCCAGCTGCATCCACG
Seq A exon
GTAAGGTTCCAGTGCGAGCTGCAATTGAGCCTTAAAGAGATACTGCAATGAGTAGCATAGTTAATAACAGTAAACCTCCTATGTGCTTTATCTAGGTGAGATACATTTTCTTAGTCCTTTTTAGGTTTTAACACTTAAATGTGCAGAGCTCCTGCCACTGATTTCTCTAATTAATTCTTCTAATTTTAG
Seq C2 exon
TGCTGTGGAGATGAGAAATGGGGAGACTGGAGGCCACATCTAGCAATGGTGTTATCCAACTTGACTAATAACGTGGACTTGGAATCCCGGACCATTGCTACCATGGGAGACACTCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002364:ENSGALT00000003726:15
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=0.000
Domain overlap (PFAM):
C1:
PF129312=Sec16_C=FE(10.0=100)
A:
NA
C2:
PF129312=Sec16_C=FE(14.4=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:
TTTGCCAACAGTCTCCCAATT
R:
AGAGTGTCTCCCATGGTAGCA
Band lengths:
197-386
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]