HsaINT0146732 @ hg19
Intron Retention
Gene
ENSG00000120341 | SEC16B
Description
Protein transport protein Sec16B [Source:UniProtKB/Swiss-Prot;Acc:Q96JE7]
Coordinates
chr1:177930725-177933414:-
Coord C1 exon
chr1:177933306-177933414
Coord A exon
chr1:177930870-177933305
Coord C2 exon
chr1:177930725-177930869
Length
2436 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACC
5' ss Score
9.24
3' ss Seq
TTTTTGTTTTTAACTTTCAGCCA
3' ss Score
9.05
Exon sequences
Seq C1 exon
ATCTAACAGTAGGAACCCTTGTAAAGACAGCCCTGCTTCCAACTCTGGACAGGAGTGGCCGGGGGAGCTGTTTCCAGGGAGCCTGCTTGCTGAGGCCCAGAAAAATAAG
Seq A exon
GTAACCTAAAGTGACGTGGGGGCTGGAGACTGTGGCCATGTGTCGCAGCTGACACTGTCAGCAGTGGCAGAACAGGGCCCTTGGGGATGGATGTCCAGTGGCCAGCCGTCTGGAGGACCCATTCCTCCCCTCTTGGCAGAACCTCCGCCCATGCCTTCCTTTTTTCCCTCCTTACTGCCTCAGTCTTAGGCATCCGAGGCCCTGAACTGAACTCCTTTGCATTTTTATCAAATTGACAGGATCAAGAAATGTCACCTAGCTCACTCCAACATACTGGGAAAGAGAGGACGCTGTCATCAGGTGTTAGGTGTTAGGGACCCCAGGGGACTAGCAATTTGGTTTAATCCAGGAAGTGGGAAATTGCTAGAATCTTTGAATTCAGGTTTGAGAAGCAGGGCTTGAAACCTTTTCTAACTCTTCATTCATCCCTTTCCTCTAAAAATCTTATTGTATGCGCCAGCTGGGCCACAAAATGGAAATCTTTTTTAAAATAAACTTTTTATTTTAGGATAATTTTAGATTTGTGGAAAATTTGCAAATATACTACAGAGATGGGTTCTTTTCTTTTGAGACAGAGTCTCACTCTGTTGCCCAGGCTGAAGTGCAGTGGTGCAATCTCGGCTTACTGCCACCTTCACCTCCTGGGTTCAAGCGAATCTCCTGCCTCAGCCTCCCGAGTAGCTGGGATTACAGGTGCCTGCCACCATGCCCAGCTAATTTTTGTATTTTTAGTAGAGACCGGGTTTCACCATGTTGGCCAGGCTGGTTTTGAACTCCTGACCTTGTGATCCACCCACCTCGGCCTCCCAAAGTGCTGGGATTACAGGCCTGAGCCACCACGCTCGGCCAGAGATGGGGTTGTAATTTTGAAAGTCTTGTATTAATCTTGTCTCCCTTATTAGGTTTGTATGAGGTCAATTTCTTTTGTATACTTAGTGCTTAATAGAGTAGGGCACATATTATTATGACTAATAGTAACAATACAATGACAGCAGCCACATACATATGTACAGCACCTTACACTGTACAAAGAGCTTTACTTTTTATTTTATTTTATTTTTTTGAGACAGAGTCTCACTGTGTTGCCCAGGCTGGAGTGCTGTGGCACAATCTCGGCTCACTGCAACCTCCGCCTCCCTGGTTCAAGTGATCCTCCTGCCTCGGCCTTCCTAGTAGCTGGGACTACAGGTGTGCACCACCATGCCCAGCTAATTTTTGTATTTTTTAGTAGAGATGGGGTTTCACCATGTTGGCCAGGCTGGTCTGGAAATCCTTACCTCAGGTGATCCTCCTGCGTCGGCCTCCCAAAGTGCTGGGATTACAGGTGTGAGCCACTGCGCTTGGCCCAAAGAGCTTTTGAATCCATTATTTTACTTGTATGCACACAAGATGTAAATTCAATGAATTTCTTTATTTATTTATTTAGAGACAGAGTGTTGCTCTGTCACCCAGGCTGGAGTGTAACAGCATGATCATAGCTCACTGCAGCCTTGAACTCCTGGGCTCAGGTGATCCTTCCACCTCAGCCTCCCAAGTAGCTGGGGCTATAGTTGTGCACCACCATGCCCAGCTAAATTTTTTTATGTTTTGTTTTTTTGTAGAGATGGGGTCTTGCTATGTTGCAATTTGGGGTCTCAAATTCGTGGGCTCAAGTGATCCTCCTGCTTTGGCCTCCCAAAGTGCTGGGATTACAGGTGAGAGCCATCATACCTGGCCCCATGAATTTCTTTACACCTGCATCCAAGGGGAAAGCACAGTACCTGGAGCATAATAGGTGCTCATTAAACAGTCAATGAAGGAGGGCCAGGCATGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCTGAGGTGGGCAGATCATAATGTCAAGAGATTGAGACCATCCTGGCCAACATGGTGAAACCCCATCTCTACTAAAAATACAAAAATCAGCTGGGCGTGGTGGCGTGCCTGTAGTCCTAGCTACTTGGGAGGCTGAGGCAGAAGAATCGCTTGAACCCAGGAGGTGGAGGTTGCAGTGAGCCGAGATCATGCCACTGCACTCCAGCCTGGTGACAGAGTGAGACTCTGTCTCAAAAAAGAAAATTGTTTATGAATGAATACATGAATTGCTTGAAGTATATAGGGCAGATATGATTATATCACAGATGAAAGCACTGAGCTCAGAGAGCCTAAGTCACGTGTCCAGGGGCACAGCAGCTGAGTATAAGGCAAAGCTGAGATTTCAATTCAAGGGCCCCTGACCCCAAGGCCTGCACTCTTTCCATTGGGTCATAATATATCCTTTGGCAAATGCCTATCAACTTGATTATCTCTTTTTATCCTTTCAACACATCCACTTTCACCGTATGTATTTTGTTTCTTTGAAGGAACGCTTGAGAAGACCAGCTCTCTGAAACTTCTTCCTGTGTGTTTTTGTTTTTAACTTTCAG
Seq C2 exon
CCATCATTGGCTAGTGAGTCCAACCTTCTCCAGCAGCGTGAGTCTGGTCTCAGCTCCAGCAGCTATGAGCTCAGTCAGTACATCAGAGATGCCCCGGAGCGGGATGATCCCCCAGCTTCAGCAGCTTGGAGTCCAGTTCAGGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000120341-SEC16B:NM_033127:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.865 A=NA C2=0.883
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Associated events
Other assemblies
Conservation
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)