HsaINT0146728 @ hg19
Intron Retention
Gene
ENSG00000120341 | SEC16B
Description
Protein transport protein Sec16B [Source:UniProtKB/Swiss-Prot;Acc:Q96JE7]
Coordinates
chr1:177899680-177901704:-
Coord C1 exon
chr1:177901625-177901704
Coord A exon
chr1:177899779-177901624
Coord C2 exon
chr1:177899680-177899778
Length
1846 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGC
5' ss Score
9.85
3' ss Seq
TCCATGCTTTTCCATCACAGAGT
3' ss Score
8.05
Exon sequences
Seq C1 exon
GTGGGGGTGAAGGCCGAGGATCCGCATCCAGCGGGGGAGCAGCTGCGGGCGCTGGGGTTGGAGGCTTGTCTGGACCAGAG
Seq A exon
GTAAGCGGCCCCCCTGGGCTGGAGCCTCGGACCCCAGCAGATGCCTGTGTGTGAGGACTGAACCTTCAGTGTGGGCAGTGCTGACTCCTGGCGAACCTGAAGAATGCTTCTCTGCTGTGTTAGTTTGCTCAGGCTGTCATAACAAAGTACCACAGAACAGAGGCTCAGACCACAGAAACCGAATTTCTCACAGTTCTCCAGGCTGAAAGCTGAGGTCCAGGTTTCAGCAGGGTTGTGTCTTTTGAGACCTCTTTCCTTGGCTTGTGCCCGGCCATCTTCTTTCCACGTCTTCACATGGCCTTTCCTCTGAGCGTGTCTGTGTTCAGATTTCTTCCTCTTATAGGGACATCAGTCATACTGGAATGGGCTACCAATATGACCTCCATTTATGTTAATTGCCTCTTTAAAGACCCCATCTCCAAATGTTGTATTTTTATGTTTCTCCAAACATATGTTTTCTGAGGTACTGGGGGTTAGGGCTTCAACACGTGATTTTTTTTTTTTCTGGGAACACAGTTCAACCTATAACAGCTTCCTCGGGGGAAGCCTGGGGACTTGCCTTTTTCCCTGTCCCAGGAGGAGGTGGAGTTCACTGGAGACCTTGGCCAGGGCTGTGACAAATTCTTGATGAGTTGTCCACATCAGTATGGATTTCATATCTATTGCTAGGAAAACATTTTTATTTCTTTAAGTCTGGTTAGATAACTCTTGTAGAGTTTTAGGCCTTTTGAAGGCTATATTACTTTTTATGATGGTATCAATATAATTTATTGAGGCTTTTTCTTCTTGTCAGTATTGCCACTCCAGACCCAGGGGTTGGTTGTTTCCACTTGAACCATGTTTGCTTGCTTGAGATTCCCTGAGTTCTATTAAGAAACCCTTCTGATATGGTTCTCTTTGAAAACATTTCAGTAGCTTTTGGGGCACAAGTGGTTTTTGGTTAATAGATGAATTATATAGTGGTGAATTCTGACATTTTAGTGCACCCACCAGCCAAGTAGTGTTGGCGTGGATGTGGGTTGTACCTAATATGTAGTTTTTTTTATCCCTGACCCTCCTCCCACCCTTCCTCTTCTGAATCTCTAAAGTCCATTATGTCACTCTGTGTGTCTTCACATACTCATAGCTCCCCACTTATAAGTGAGAACATATGGTTTTCGGTTTTCCACTCCTGTGTACTTCACTTAGAATAATGGACTCCGGCTTCATCCAAGTTGCTGCAAAAGACATTATTTTGTTCATTTTAATGGCTGAGTGTATTCCATCGTATACGTATACCGCATTTTCTTTATGTACTCATTAGTCGATGGGCACTTAGGTTGGTTCCACGTTTTGCAATTGTGAATTGTGCTGCTATAAACATACTTGTGCAAGTGTATTTTTCAAGTAATGACTTCTTTCCTTTTGGGCCGATACCCAGTAGTGGGATTGCTGGATCAAATGGTAGTTCTACTTTTAGCTCTTTAAGGAATCTTCATACTGTTTTTCATAGAGGTTGTACTAATTTACATTCCCACCAGCGGTGTATAAGTGTCCCCTTTTGCCAACATCTATTATTTTTTGACATTTTAGTTATGGTCATTTTTGCAGGAGTAAGATGGTATCTCATTGTGGCTTTAATTTGCATTTCCCTGATGATTATTGATGTTGAACATTTTTTTCATTTGTTTATTGGCCATTTCTTCTTTTGAGAAATGCATATTCATGTCCTTTGGAGAGTCGATAAGGAACTTAAAGAAATCACTGAGAAAAAAACAAATAATCCTGATATGCTTCTTGAAGGCCTCGACATTCTGGAATCTGGGAGGCAGGCACTGATGGGATTTTCCATGCTTTTCCATCACAG
Seq C2 exon
AGTGTTTCCTTTGAGCTCTGCTCCAACCCTGGTGTTCTTCTTCCTCCACCTGCCTTAAAAGGGGCTGTTCCTCTTTACAACCCATCTCAGGTGCCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000120341-SEC16B:NM_033127:24
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.894 A=NA C2=0.783
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
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:
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
- Genotype-Tissue Expression Project (GTEx)
- 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)