GgaINT0126245 @ galGal3
Intron Retention
Gene
ENSGALG00000002364 | SEC16A
Description
NA
Coordinates
chr17:8555241-8556690:+
Coord C1 exon
chr17:8555241-8555329
Coord A exon
chr17:8555330-8556531
Coord C2 exon
chr17:8556532-8556690
Length
1202 bp
Sequences
Splice sites
5' ss Seq
ATGGTATTT
5' ss Score
3.85
3' ss Seq
TCTGTATATTTATAATATAGGGC
3' ss Score
6.01
Exon sequences
Seq C1 exon
GAATGCAGAGAATTGCCTCAGAGTCTCCTTCACGAAACTCTTTTCCTGAGCAGAGAGAGGAAGATTTCTACAGCAGAATGGCTAGAATG
Seq A exon
GTATTTTTATTTTATACATCTCTAGCAAACATCAGCTGCATTACATGTCTTTGCTAACACAGAATGTACTGGGGGTTTGTCTTGCACTTCATCTAGATGTGAAGCTCTTTCTCCTTTGCTCCCCATCCCCTTCAGTGAAATAAAGAATCAAGAACTAGTATGGAACTCTCAGCCATTTTTAATTGCTACAATTTTTTTTTTAATTGTATGGGAGTGCCAGGCTGTTACCTGAAGAGTTCAGTGGTTTTTTTCCTCTGGCCTGTCTTCCTCTCCTACCTCCAAAGTGATTCTTCAAGAAGAACTTGAGGCATACAAGTGAGACAACCAGTCACAGTTCTGTGAATGAGTTTTAAAAGCACTATGTTGACTAGCATTTAATCGTGACTGGAATTATGCACGGTGTTAATCAAAATTCCAAAAGCCCTTTTTAAATGTATGGTGTTTCCACTGTTTATGTATTTCTGAAGTTGGTATTTCCTTGGAAGTTATTTTAGTTTCTTCTTTGAATGAATTAATATAAGCATTTTTAATAGGGATACATTTATCAACTGATAAAGGTTGTGGAGGATCCTTAACTATACTTGTAAAAGAAACTGGTGTGGTTTTTTTTGTTGTTGTTGTTTTTCTTTTGGTAGGAGAGTTGTTGTATGTAAGGGTTGGAGGTGAGGAAGATGGGGATGGAAGCACATCAGTCACTATCTGGTGCAGCAGTTCTGTATCTTGCCTCTTGTGGACTGATTGTCTGCACAGCAGTGACATGATTTAACTTCTCAATGAACTAGTTAAATGGCAGTGTAATTAATTGGCCAGGCTTCGGCTCTTTTTCTGTGCCTCCTGCATGTCAGAAGACGTAGAAATATCTGAATAACCAGCTTGAATGCTGTGGGAATTTGTAATGAAAAGTGCATGTTGTGTCAGATTCTTAGCTGTTTGCTTATTAAGCATGTCCTGGCTTTATATCTAACCAGGCACCAGAACGAAGATCCAGATCTGCATCTCAGTCTTCAGCATATATGGTATGCCATGATTAGGGTGTTTGTTCTGCTGATTCCATAACCTTACGTGTATTTGCCTTTTACTGATGTATTTATAATTCTTCCTATTACTAACTTTTCAAAGAGAGAATTTGTGTAGCAAGATGGGGCTGTTCTGTTCACTCCAGCGGTAACAACTTTGTGCTTTTCTGTATATTTATAATATAG
Seq C2 exon
GGCTATGGACAGAGATCCCGGACAACTTCAGAGTCCTCTGCTCATTCTGTGGGACGAGAGAGATCTAACTCTGCAGCAAAACAGCCACCTCCTTCTCCACCTGTTCCAGTAGGGAAAGAGACTAAGAAAGAAGTGAAAAAAGAGCCAGCATCTAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002364:ENSGALT00000003726:23
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 Skipping 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:
ATGCAGAGAATTGCCTCAGAGT
R:
CTTTCTAGATGCTGGCTCTTTTT
Band lengths:
246-1448
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]