GgaINT0126245 @ galGal4
Intron Retention
Gene
ENSGALG00000002364 | SEC16A
Description
SEC16 homolog A, endoplasmic reticulum export factor [Source:HGNC Symbol;Acc:HGNC:29006]
Coordinates
chr17:7866145-7867594:+
Coord C1 exon
chr17:7866145-7866233
Coord A exon
chr17:7866234-7867435
Coord C2 exon
chr17:7867436-7867594
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 Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
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]