HsaINT0146696 @ hg19
Intron Retention
Gene
ENSG00000148396 | SEC16A
Description
SEC16 homolog A (S. cerevisiae) [Source:HGNC Symbol;Acc:29006]
Coordinates
chr9:139342536-139345860:-
Coord C1 exon
chr9:139345708-139345860
Coord A exon
chr9:139342614-139345707
Coord C2 exon
chr9:139342536-139342613
Length
3094 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGTA
5' ss Score
5.69
3' ss Seq
CTCGTGTTTTTTATATTTAGGGT
3' ss Score
9.7
Exon sequences
Seq C1 exon
ACCCCCTCGAGGACGGTGCCAGACTCGGAGGCCCCCCCAGGGTGGGATCGTGCCGACTCGGGTCCCACGCAGCCACCTCTGTCTCTCTCACCCGCTCCCGAAACAAAGAGACCCGGACAGGCAGCCAAGAAAGAAACGAAGGAACCTAAGAAG
Seq A exon
GTAGTACAGCCTGCCCACGGTGCGCCTGGCGGCCGGGAGGGTTTGGGCAGGAGGCACGCTTCCCAGAGCGCCATCCTCTTAATTCACCACACATGCAAATAGCCTCCTGATACAAACAGCCGAGTGTCTACAGTGCACACGGCATGATGGGTGTCTGTGTATTTGTGCCTTCAGATAATAGGATAATAGCCCACCCAGGTCAGCATGGGGACACAGCCCGGCCCCCAGAGGTCGCCTCTGGCCACTACCTGTCAGACCCACCCGCAAGGGACCAGACGGCAGCCGCTGCTTTGTCACTGTGGTGTGTGCCTGCTGCCGGCTCACAGATCCTTTCTCCCAGCCGTGGACTTTGGGACTGCTTTCAGTGTGGGGCTGGGATCCGTCAGGCCCCAGGAGCCTCCTTGCCTATCTATTGGCGAATGCGCTTGTTTTTCTTAGGTGCGTGCCAAGGAGCTGAGGGTTTAGCTCGCAGGATGAGCGTGTGTTCAGCTTTAGGAGACACTGCTGAGCAGTTGTCCTAAATGGTTGGTTGCCCCAAGTCACACATCCTGCAGCAGAGGACAAGGGCCCTGGATATCCCTCATCTTCACCAATACTGGGCAGTGCCGGTTCTTTAACTTAGCCATTGTGCTGGGGCTGATGACATCTCATTGTGTCTTCCTCTGCATCTCCACAGCGAGGTGTGACGCTGGGCACCTTCTCGTGTCCCTGTTACCATCTCACCACTCTTTTGGGGCAGTGCTTGTTCAAGTCTCTATCCGTTGTTTTTTTTTTCCCCCATAAAGATGGGGTCTCACTATTGCCCAGGCTGGTCTCAAACTCCTGGGCCCAAGTGATCCTCCTGCCTCGTAGCTGGGACTGCAGGTGTAGCCACCACACCTGGCTTTCCTTTCCATTTTTAATGGTGTTCTCTTCAGGACTTGCAGGAGTCCTTTCTGTATTATGGATATAAGTCCTCTGTTAGGTGTATTTATTGTGATATCTTCTCCCAATCTGTAGATTGCCTTTTTACTTGTAATGGTTTTTTGTTTGTTTGTTTGTTTGTTTGTTTTGAGACAGGGTCTCACTCTGTCAGCCAGGCTGGAGTGCATTGGCATGATCTTGGCTCACTGCAACCTCCGCCTCCCAGGTTCAAGCAATTCTCCTGCCTCAGCCTCTCCAGTAGCTGGGATTACAGGTGCCCACCCCACTCCCAGCTAATTTTTTGTATTTTTAGTAGAGATGGGGTTTCACCATGTTGGCCAGGCTGGTCTCAAACTCCTGACCTCAAGTGATCTGCCTGCCTTGGCCTCCCAAAGTACTGGGATTACAGGTGTGAGCCACCATGCCCGGCCTAGTAATGGTATTTTATGAAAAATATCATTCTTCATTTTAATAAAGTTCAGTGATCAGATTTTTCTTTTATGGCTGCTGTCTTGAAAATAAACACACATTTAATTCCAAATTTGTGTGAGCTCTGAGATAAAACATGATACTTGAGCAGGTTTCCAGTGCATAGGCTATCACAGGCCTCCCCGGGACAGCTTGTCTGGCCAGTAGAACTCACAGAGAAACAGAATTGAGGGTGTGTAGTAGCTGCTGAGGCTTCTCCTCTTTCTTCAGTAGAAGTGAAGTGCATCAGGCCGGGCATGGCGGCTCACACCTGTCACCCCAGCACTCTGGGAGGCCGGGCGCAGCAGCTCCTGCCTGTCACCCCAGCATTCTGGGAGTCAGGGTGCGGCGGCTCACGCCTGTCACCCCAGCACTCTGGGATGCTGAGGCGAGCAGATCATGAGGTCAGGAGTTCACGATCAGCGTGGCCAAGATGGTGAAACCCCATCTCTACTAAAAATACAAAAATTAGCCATGCATGGTGGTGGGTGCCTGTAATCCCAGCTACTCAGGAGGTTGAGGCATAGAACTACTTGAACCCGGGAGGCAGAGGTTGCAGTGCGCCGAGATCGCGCCATTGCACTCCAGCCTGGGGGACAGAGCGAGACTCTGTCTCAGAAAACTAACAAACCAAAATGAAGTGCATCATGTGAAGAATAAAGTAAAGTTTCCTAATAACCGAATTCTCCACACATGGGAAACACAGAGGGCTGTATCTGCCTCCGACACACACTGACTTGGACAGCCCGCCTTCCACTTCTCAAAGGGGAGGACGTCGGAAGCTTTGTCAGTGTTTAGACGTAAAAAGTTCCTGAAGGCACGTTACTGTTCTGACCTATTTAAATGACAGTAAAATACACAGAACAAAATGCACATTTTTACCATTTTCTGAGTGCACAGTTCTGTGGCACCAAGTACATTCACACTGTTGTGTTGCCATCACCACCATCCATCTCCAGAACTGTCTCACCTTCCCAAACAGAAACTCTGTCTCCTTGAAACGAAACAACTCCCGGTTCCCTCCCACCTCCATCCTCCTGGTGTCTCTGGATCTGCTTCCCACCTCCATCCTCCTGGTGTCTCTGTGGATCTGCTCCCCACCTCCATCCTCCTGGTGTCTCTGTGGATCTGCCCCCCACCTCCATCCTCCTGGTGTCTCTGTGGATCTGCCCCCGACCTCCATTCTCCTGGTGTCTCTGGATCTGCTCCCCACCTCCATCCTCCTGGTGTCTCTGTGGATCTGCTCCCCACCTCCATCCTCCTGGTGTGTCTGGATCTGCTCCCCACCTCCATCCTGGTGTCTCTATGGATCTGCTCCCCACCTCCATCCTCCTGGCGTCTCTGTGGATCTGCTCCCACCTCCATCCTCCTGGTGTCTCTGTGGATCTGCCCCCCACCTCCATCCTCCTGGTGTCTCTGTGGATCTGCTCCCACCTCCATCCTCCTGGTGTCTCTGTGGATCGCCCCCCACCTCCATCCTCCTGGTGTCTCTGTGGATCGCCCCCCACCTCCATCCTCCTGGTGTCTCTGTGGATCTGCTCCCCACCTCCATCCTCCTGGTGTCTCTGTGGATCTGCTCCCACCTCCATTCTCCTGGTGTCTCTGTGGATCTGGCGACTCTGGGGCCTCACAGAAGTGGGTCATGTAGAATTTGTCTTTTTGCCCTGGCTTATTTCATGGAACATAATGTTTTCAAAGTTGTTCTCGTGTTTTTTATATTTAG
Seq C2 exon
GGTGAATCCTGGTTCTTTCGTTGGCTACCTGGAAAGAAAAAGACAGAAGCTTATTTGCCAGATGACAAGAACAAATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148396-SEC16A:NM_014866:23
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.651
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)