HsaINT0146703 @ hg38
Intron Retention
Gene
ENSG00000148396 | SEC16A
Description
SEC16 homolog A, endoplasmic reticulum export factor [Source:HGNC Symbol;Acc:HGNC:29006]
Coordinates
chr9:136471975-136477115:-
Coord C1 exon
chr9:136474049-136477115
Coord A exon
chr9:136472112-136474048
Coord C2 exon
chr9:136471975-136472111
Length
1937 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
CCAAATGCTTCCTCCCACAGGAT
3' ss Score
9.8
Exon sequences
Seq C1 exon
TGAAACGTCTCATGGGGGCCACCCTCATGGGAACATGCCTGGGCTCGACCGACCCCTGAGCAGGCAAAACCCACATGACGGTGTGGTCACCCCAGCAGCATCCCCTTCCCTCCCTCAGCCTGGTCTGCAGATGCCAGGACAGTGGGGGCCAGTGCAGGGAGGCCCACAGCCCTCGGGGCAACATCGTTCACCCTGCCCTGAAGGACCTGTTCCCAGCGGGGTGCCCTGTGCCACCAGCGTTCCTCATTTCCCCACCCCGTCCATCCTACATCAGGGCCCTGGTCATGAGCAACACAGCCCTCTGGTGGCTCCCCCAGCAGCCTTGCCCAGTGACGGAAGAGACGAGGTGAGCCACTTGCAAAGTGGAAGCCACCTGGCCAATAACTCTGATCCTGAAAGTACATTCAGGCAAAATCCCAGAATTGTGAATCACTGGGCAAGCCCAGAGCTCAGGCAGAATCCAGGAGTGAAGAATGAGCACCGGCCCGCCTCTGCTCTTGTGAACCCCCTCGCCCGGGGAGATAGCCCAGAAAACCGTACGCACCACCCACTGGGGGCTGGGGCCGGGTCTGGCTGTGCCCCGCTAGAAGCAGACTCAGGAGCTTCAGGAGCTCTGGCGATGTTTTTCCAAGGGGGAGAGACAGAAAATGAGGAGAATCTCTCATCTGAAAAAGCAGGCTTATCTGGTCAAGCGGACTTTGACGATTTCTGCTCCAGCCCTGGGCTAGGCCGTCCGCCCGCACCTACACACGTGGGGGCAGGCAGCCTCTGCCAGGCCCTTCTCCCAGGCCCCAGCAATGAGGCTGCTGGTGATGTGTGGGGTGACACAGCGAGCACAGGGGTGCCGGATGCCAGCGGCTCGCAGTATGAGAATGTTGAGAACTTAGAATTTGTTCAGAATCAAGAAGTTCTGCCAAGTGAGCCCCTCAATTTGGACCCTTCCTCCCCGAGTGACCAGTTCAGATATGGGCCCCTTCCTGGGCCAGCTGTGCCCAGGCATGGTGCTGTGTGCCACACCGGAGCCCCTGATGCCACACTGCATACAGTGCACCCTGACAGCGTGTCATCCAGCTATAGCAGCAGAAGCCACGGAAGGCTCTCAGGCTCAGCCAGGCCCCAGGAGCTGGTTGGCACATTCATTCAGCAAGAAGTTGGAAAACCCGAGGATGAAGCTTCAGGTAGTTTTTTTAAGCAAATCGATTCTTCTCCCGTAGGAGGTGAAACAGACGAGACCACTGTGAGCCAGAATTACCGTGGCAGCGTGTCCCAGCCCTCAACCCCGAGCCCCCCGAAACCTACAGGAATATTTCAGACAAGTGCAAATAGTTCTTTCGAACCGGTAAAATCTCACTTAGTTGGGGTAAAACCATTTGAGGCAGATCGCGCCAACGTGGTTGGTGAAGTAAGGGAGACCTGTGTCCGCCAGAAGCAGTGCAGACCAGCTGCCGCCCTGCCCGATGCTTCCCCTGGCAACCTGGAGCAGCCACCAGACAACATGGAGACCCTCTGTGCACCCCAGGTCTGTCCCCTGCCTCTTAACTCCACCACGGAAGCTGTGCACATGCTTCCGCACGCAGGGGCACCGCCCTTGGATACTGTGTATCCAGCACCCGAGAAGAGGCCTTCAGCCAGGACCCAGGGGCCCGTGAAGTGTGAGAGCCCAGCAACGACTCTGTGGGCGCAAAGTGAGCTGCCAGATTTTGGAGGCAACGTCCTTCTGGCCCCTGCAGCCCCGGCGCTTTATGTGTGTGCAAAACCTCAGCCACCTGTTGTTCAGCCTCCAGAAGAGGCGATGTCCGGGCAGCAGTCACGGAACCCAAGCTCGGCGGCCCCGGTGCAGAGCCGAGGTGGCATTGGTGCTTCTGAGAACCTTGAGAATCCTCCCAAAATGGGAGAGGAGGAGGCCCTTCAGTCCCAGGCGAGTTCTGGTTATGCAAGTTTATTATCCTCACCGCCCACTGAGTCTCTGCAGAATCCTCCAGTCTTGATTGCTCAGCCTGATCACAGCTATAATCTGGCTCAGCCCATTAACTTTTCTGTGTCCTTATCGAACTCTCATGAGAAGAATCAGTCCTGGAGAGAGGCTTTGGTGGGGGATAGACCTGCAGTCAGCAGTTGGGCTCTCGGTGGTGATTCTGGGGAGAACACTTCTTTGTCTGGGATTCCAACCAGCTCTGTCCTTAGCTTGTCTCTGCCTAGCAGTGTTGCCCAAAGTAATTTTCCACAAGGTTCTGGTGCTTCCGAAATGGTTTCTAATCAGCCTGCTAATTTGCTGGTTCAACCACCATCCCAGCCAGTTCCAGAGAACTTGGTTCCAGAAAGTCAAAAGGATCGTAAGGCAGGAAGTGCTCTTCCCGGATTTGCTAATAGCCCTGCTGGAAGCACAAGTGTGGTGTTAGTTCCACCTGCACACGGCACCCTGGTGCCTGATGGTAATAAGGCAAACCATTCCAGTCATCAGGAAGACACTTACGGAGCCCTAGACTTTACCTTAAGCAGGACTTTGGAAAATCCTGTAAACGTGTACAACCCGTCCCATTCTGACAGCCTCGCTTCTCAGCAAAGTGTTGCCAGTCATCCCAGACAATCTGGGCCTGGGGCGCCTAACCTTGACCGTTTTTATCAGCAGGTCACGAAAGATGCCCAGGGCCAGCCTGGCCTCGAAAGAGCCCAGCAGGAGCTGGTGCCACCCCAGCAACAGGCTTCTCCCCCACAACTACCCAAAGCCATGTTTTCGGAGCTGTCAAATCCAGAAAGTCTGCCCGCACAGGGACAGGCCCAGAACTCAGCACAGTCACCAGCAAGTCTGGTTCTGGTCGACGCGGGTCAGCAGCTGCCCCCTCGGCCTCCTCAGTCCTCTAGCGTGTCTCTGGTGTCCAGTGGCTCCGGCCAGGCAGCTGTGCCGTCAGAGCAGCCGTGGCCACAGCCAGTGCCTGCACTTGCCCCCGGCCCACCGCCTCAGGACCTGGCCGCCTACTACTACTACCGGCCTTTGTACGATGCCTACCAGCCTCAGTACTCTTTGCCGTACCCACCGGAGCCTGGCGCAGCCTCCCTCTATTACCAG
Seq A exon
GTAAGAGTCGAGTCGTATGTGTAACCCACTTTTCTGTCTGTGCTTTGACCAGTTGAGTCTCACTCACAGTGTATTCCTTAGTAGTGTTTGTTCGCTTGGTTCCGGGGTCACCCACAGTCCCGCAGGCGTGAGAACAGTATTCCAGTAACGCTTCCTGAGGACAGGGCTCCCGGCTCCAGAACCTACTCTCCCAAGCACAGGCCACCCTTAGTTCACACCACGCGTTAGCATCTTGAATTGCTTATAATACTTGCTTAGGATTTGAACCAGCCTCCCCAGCTTATGTGACAAAAAGAGCCCTCCATTTGCTGTCACCCCTGCTCCTGCTGGCTGTCTGCAGAAAAGTTCTGTCTTGCATGCCTTGGGAAGCTGGGCTAGCCTCTGGAAGCTTACGTCAGAAGCATTGGGTATAACCATAGTCCTTTAAATGCCCCTGGAGAATAAAAACATGGAGAGAAAATAGTTTTGGAGCATGAGCCACACGCATCAGCTAAGCGAGGCGGAGTCCCGCAAGCTGCTGTCAGCACGTGGTGGTGCGGGCAGCGGCTCGGGGACCGGCTGTGCTCGTGCAGAAGATTCTTCTGTGCCTCTTTTTCACAGGGACACCAGCTCATGAGTGACATTTGAGTTAGGTTCCGCATAATCCTGCAGTCGTTCGAAAAGTGTCTGTGTACACATTTGATCATTATCTGCTTTTCCTACCCTCTAACCCAGTTCAACATACACCGATTGGGTTCACCGATTCAGTGTCACCCCAGGTAGAAGGATTGTGTGATAGGGAATTGGAAAACCATGGTCTTGCGGTATGTAAGGCCAGTTGGAACCAGACTTGGGGCCACACAGGAAGGCCTTGCAGTCAGAAGGGGGCCCGCCCCGAGGAGCAAGGCTGCCGTGGCTTGCTGGGTACTGCCCCGGGGAATGGGGCTGGGCCTCCCCCATGGGCCTCGAGCATCATGGTTTGTGTGCGTGTGACCAGGTGCACACCTGACCCCTCAGACCTGTGTAGGTTCCAGAAGGAGCCCAGGCACTTTTTATTTCCATACAAGGACATTCAGCTCTGCTGGGAGCCCTGGGGTGGGGCTGGTGCAGAGCGACGGGAAGCCGTGGCCTCACTTCGGGTCCTTTGTCCGGTCCTCCTGCTGCGAGCCACCTCCCTCCGCAGGAGTGCACTCCTCCCGCCGTGCCTCTTGCTGTGGTGTCCGGGTGGCCAAGGATGAGTCTGTTTTGCTGTGATTTCACATTTCCTGCCAGGCAGCGGCAGCGTCGAGGCCTTGAGGCTTTGAGGCGCTTAAGCGTGAATTCTGGCGTGTGTCCGGGGCACTGCATGTCTTCAGATCCTCATGTGTCCACATGGGCCCCGTTGGGAACAATTCTGTGGCCACGAATTGGTTGGTGATGGGGCTGAAGCCTCCCGAGAATAAAGCACGGTCCGCTTTTAGAGGCTGCTCCTGGCTGGGGCTCTGTTCACTGGGACCCTGGTTCTCTGACTTAACTGAGGTGGCATCTGAAGCGGGACGCAGGGGTTGTTCAAATCATGGCATCTCCACACTGGACTTATCAGGAAGCAGAAACCTAACAGCCCCTTCCAGAAGTCGCCACAGCCCCCTGGGGTTGTCTGCTGACATGCTGGTGCCCTGGGTCCATCCAGAGGTCTCCTGAACAGGGCCAGGGCTGTGGGTCTTAGGACACCCTGCTGCCTGTGGGTGTGGCTGTGCTTTGGAGGTCTGTGTGGTTGTGTATGAGGGAAGGGCCACGCTCAGTCCTGCTGGAGAGCAGCCATCTGCGATGTTTCTAGCTCAGGCTGGTTGTTGGACGAGCTTGCTCTTGGTAGGTATCTAATGCTGCCCGCCCTCTGCAATGTTTCCAGCTCAGGCTGGCTGTTGGACGAGCTTGCTCTTGATTGGTGTCTAATCCTGCCCAAATGCTTCCTCCCACAG
Seq C2 exon
GATGTCTACAGCCTCTATGAGCCTCGATACAGGCCCTATGATGGTGCTGCGTCTGCTTACGCCCAGAACTACCGCTATCCCGAGCCCGAGCGGCCCAGCTCCCGAGCCAGCCACTCCTCGGAACGGCCACCTCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148396:ENST00000371706:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.913 A=NA C2=0.553
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion 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:
CAAGTCTGGTTCTGGTCGACG
R:
TAGCGGTAGTTCTGGGCGTAA
Band lengths:
343-2280
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