GgaINT0126231 @ galGal3
Intron Retention
Gene
ENSGALG00000002364 | SEC16A
Description
NA
Coordinates
chr17:8549031-8550023:+
Coord C1 exon
chr17:8549031-8549208
Coord A exon
chr17:8549209-8549880
Coord C2 exon
chr17:8549881-8550023
Length
672 bp
Sequences
Splice sites
5' ss Seq
AAGGTATTG
5' ss Score
7.76
3' ss Seq
ATCTTTTCTCCCTCCTTCAGTGC
3' ss Score
11.07
Exon sequences
Seq C1 exon
AGCCAGCTGTATAGAAGTAACCACGATTTAACGGCTAATGCGTATGAAACTACTGCACAGGCAGTGTCACTGCACACAGATTACCCATACGGTGGATATGCTCCTAACTTTGATGGACAACAGCCTTTTACAGATTATGGCTACTCGACTGAAACTGGATGGTCAGCTGTAGATCAAG
Seq A exon
GTATTGGCACCACTGGGGAGGGAGGTGGGAAGGGACTGTGTGTGTAAGGCTGATTATGGGTGGTAGTTTGTGCTGTTGTTCTGGTTTATAGTGTATGGTACCATTTTCATTGAGTCAGTTAACAGGAAAATACAGCTATCTGCTGTGTGTGTACACGTGAACAAAATTGTTCTGTTTTTAGCATAAAGATAACTTGTTTTCATGGAAGGGCAGTGGTTAGATGGTGGTTGTGATTAAATCTTACTGGCATCTGTAAACATCTTCTGGATGCATTTTTGAACCCCATTGCTCGTGCTTCCAAGTGATGGTTACAATTTAAATGAAACTTCAGATTTATCCACAATGTTCTTCTTTTCACCATTTCTCTGGAAGAGGTTTTCCAGAGTAACCTGAAGTACATCTTTAGCTCTTTGAAGATGTCATGCATTTGTACAGAGGTTTCACAGACAAGTCTGAGACAGACAAGCAAAGCCCCTGTGTTGTAGCAATAAGTGGATCTTAGAATTCTTTAGTTTTGTTCTTTCTGTGAAATTTTCAGGTGATCTTTAGAAATTTGGTGGAACCAATTAATTTATTTTAACGTTTAGTCCAATTGAATTAGTTTTTTTTTTTTTTTAATTTAGTTGCAGGTCAGATCCATTTTTCTCATTTCATCTTTTCTCCCTCCTTCAG
Seq C2 exon
TGCCCTTAAGGCCCTCAACGCCTGAGAAATTTTCAGTGCCTCACCTGTGTGCCAGGTTTGGTCCTGGGGGCTTCTTAATAAAAGTACTGCCAAACCTGCCTTCGGAAGGACAGCCAGCCCTGGTTGAAATACACAGCATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002364:ENSGALT00000003726:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.517 A=NA C2=0.167
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF129322=Sec16=PU(33.0=70.8)
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:
GCCAGCTGTATAGAAGTAACCACG
R:
CCATGCTGTGTATTTCAACCAGG
Band lengths:
318-990
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]