HsaINT0146712 @ hg38
Intron Retention
Gene
ENSG00000120341 | SEC16B
Description
SEC16 homolog B, endoplasmic reticulum export factor [Source:HGNC Symbol;Acc:HGNC:30301]
Coordinates
chr1:177967683-177969915:-
Coord C1 exon
chr1:177969884-177969915
Coord A exon
chr1:177968040-177969883
Coord C2 exon
chr1:177967683-177968039
Length
1844 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGT
5' ss Score
6.99
3' ss Seq
CCTTTTTCTTTTGTCTGCAGGAA
3' ss Score
12.28
Exon sequences
Seq C1 exon
CGCTGAAGGAAGGTGGGAAGCCATCAGAGCAG
Seq A exon
GTGTGTGGGAACACTCGCTCCCTTCTTTCCCCTCTTTGAGCTGGACGTGCTGTGCCGTCAGATTAGGAAAGGCAAGATTGCCTTTACTGGGGCTAGGAAAGGTCATCTACATGAATGTGTGAGTCTGATTTGTCATCATAGATGTAATTCCTTCATTTTGAGAATCGAAGGTGTTATTTATTTGGTGTCCTTAATCTGAGGACTGATTTGCTGGAGTTGATGTCTCTTGGCAGCAAAATGATGTGATTTCAGTGGAAAGATTGGGTGTTGCACCTTTGCAGTTGGGAAAGGGCTGCCTAATGAGACTATCTGGGGACAAGGAGAAAGCAGGTTTCTTCTCATTCTGCTTACTTGGTCCAAATGGTTTTGAGTTCCACCAGCCTTCAGAAAAGGCTCATGTGCCCTTCCCTGTGTCTGGGACATTTGGCCTTTCCTGGGATTTGCTGGCAAAGGCTGTCATTGCACCTGGCTTTTTCAAGGGAGTGAGATGATATGGGAAGGAAGCCAGAGGTTCCCCTGAGTTGTGAGTGACCTTGAGGTGGGAGGCCCCCTCCGCACCTTGTTCTTCTTGTGTGTTCTGCCGTCTCATAGCTCTTGGCTCATAGCTGTCGACCTCGGCTCCCTGGTGTTTGAGCAGAGTGACGTCTCAATTTCAACACCCACTCTTTTGACCTTTTGTTCTGATATGAATTTTTATATGAGGCTGGGACCTTCAGTAGTGGAAACAAGTTAACTGATTTGATCAGAATCTTGCAACCTAAAACAGTTCCTAAGGAAGAAAAAAATCGAGGCCGACCTAGCCTGTGGATGCTCCTGACACAAGGAATCCCTGAGCAAGAGTAAGATCTGAGGCGTGCTTTCCTTTTGTGGGTGCAACCCCTGTCCCCCGCTACCCCGTGCAATGGGCAGAGGAACCTGGAAGGTAATCAGTCCTTGGAGCAATTTCCCTTTTTCAGGATTACGTGGGGGAAAATTAGTTTGATGCTAGGGAGACTTTCAGCATTTAAAATCTCCAACCGGGAAGAATCCTGAGATATGGCCTTCTATTTTCTTATGAAAACAATCCCAAATTTGCCTCTTGTTGGCTCCTCTGGAGGAGGAGCAGGTATGACCATATTATATAGGTTCTAGTTCTTTGAGGGGGTTAATGTAAGGATTCAGAAAAGGTGCTTCTTGAAAAGGTCAGTCTAAATTTCTTTTTGTTTAATAAACATCTTCAGCCACTCATACTACCCTAATCTTTATCCTTGATAACACTGCTATTTATTGAGCATTTTAACATGTTAGGTAACATGTTACGCACTTCGCATAGGTTATCTTTAACTCTGTCAATAACCTTGCAAGGTAGTCCTTACAGTCTCCATTTCATGGGTAAGGAAATTGAGGCTTGAAAAAATGAACTAGCTAGTTAAGTGGCAGAGTTAGGATTTGAACTCTGATCTAGCTCTCTGCAAGACCCACTCTGTTTATGATACCACAGGGCCTCCGCTGTAAGTGTTAAATAAACACTTGCTGGGGGAATATGTGAAGAAACATCAACTGGGATTCCTTGATAGCATTTTTAGCTGTACCTATTATTGTTATCTGTCTCCCTTGCCTCCCTCATCTGTCGTTGTTCCACATGTACTTTTTAATTTTTTAAGCAATATTAATATAATTGTCTAGTCTGTTATTTGCTTCATGTATCTGAGATTGTTTCTCAGATTTCTCTGTATCCGTGACCATATGGTTTGTTTTAGATATATTTCGAGGACCATAGCTGCTCTTTTCACAAAACCTAATCAACCACTATGTTTGGATATAGGCTTCAAGTGATGATTTTTTCCTTTTTCTTTTGTCTGCAG
Seq C2 exon
GAAGATAAAATAACTGCACAACTTACTCAAAACCCAGGACAAATTCAGAGAGTCAAGGATGGAACTTTGGGCTCCCCAGAGGCTGCCCCAGACACGAGGGAAGGCCACAGCACCCTCAAAGGATCCAGACCGAGGGTTTCGGAGAGATGGACATCATCGGCCTGTCCCTCACTCTTGGCACAATGGAGAGAGGTTTCACCAATGGCAAGACAACCGTGGGAGCCCCCAGCCACAGCAGGAGCCCAGGGCAGACCATCAGCAGCAGCCCCATTATGCATCCAGGCCAGGGGACTGGCATCAGCCTGTGTCTGGAGTTGACTATTACGAAGGTGGTTATCGCAATCAGTTGTATTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000120341:ENST00000308284:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.940
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAGGAAGGTGGGAAGCCATC
R:
TCAACTCCAGACACAGGCTGA
Band lengths:
346-2190
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