HsaINT0145326 @ hg38
Intron Retention
Gene
ENSG00000140497 | SCAMP2
Description
secretory carrier membrane protein 2 [Source:HGNC Symbol;Acc:HGNC:10564]
Coordinates
chr15:74852069-74854119:-
Coord C1 exon
chr15:74854021-74854119
Coord A exon
chr15:74852187-74854020
Coord C2 exon
chr15:74852069-74852186
Length
1834 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGTG
5' ss Score
6.13
3' ss Seq
ACCTCCCCTGTTCTCTCCAGGCC
3' ss Score
10.82
Exon sequences
Seq C1 exon
ACAAATGCAGCGACAACAGTTCCTGTCACCCAACTCCCTGGGTCCTCACAGCCAGCGGTTCTCCAGCCATCAGTGGAACCAACCCAGCCGACCCCCCAG
Seq A exon
GTAGTGCTGACAAAGAACTCTGGCCTTTTCTCTCCAGTGAGGGAATCATCCAGACCAGTAGCTGAGCCCTGAGGCTGGGGGCAAGCAGAGAGCTTTCAGCCTTGGCCCCCTAAGGGCCCTCTTGCTAATTTGTTCGGAGCTGGTCACCTACAAGTAGAGGGGCTGCTCTGCCAATTAATATCCTTACTCCCTCCATCCCACCCACCACCACCACTGAGAAATAAGCTCTACTCACCAGGCCGGGCTCCTCGGTGCCTCCAGAGAGGGCATTTGTCCCTGTTGTACCCCTCCAGGTCCTCCTCGGGCCTTTGGCTTGTTCTCTCTTCCTTGGGGCCCAGAATCTCTCTCTTTTTTTTAACTTCATTAATTCTCACCTTCCTTCCTGTCTTCCTTTGTCCCTTCACCAAATACTGTGAATCTTGCCTGCTTTGTGCCTGGTGCTCCACTGCGCCGCCTCACTGCCCTCCCGCTGCACCCCTCGCTGCCCCTATGAGCGTGACCCATGGTGGAGTTGTGTGTTGCAGCTCCTGCTTAGACAGGCCAGCAAGTTCCCGCCTGCCCAATTCCTGGCAGTGAGCGAGCTCTCAGAGAGGCAGATGCTCCTAGGAGGAGAAAGTATTCTCAGAGACAGCTACATGCGAAAGCTTCCGAAGGTAGGCCTAATGTAGATGAGCAGGAGGAAGGGCAGGGCACCCGGAGCCTGCCCCACACCCCTCCCAGGCCCCAGAGCCCTGTGGAGGTGAGGCAGGCCTTACATGCGGAGTTGCCTTTCTGTGCAGCTGGGTGGTGGGCTGTAGGGAGCTGGGTCCTTCTCAGCTGGCGTCACAGACTTGGAGGAGGTCAAGACCCCCAGCGTGGCACAGCGGGGTCAGTTCTGCTCCTGCTTCCGCCCCCAGTGCCTGAAACTTGGCTCTCCACGTCAGCCTTAGGTCTTTGAAGAGCTTTTGGAGAGGTTGGTGTGTGTATACATGTGTGTGTGTACACATGTGCCTGGTTTGTCATCCTGTGAAATGACCAGTTTGAGATCTCTCCCTAAAAAGGACTGTAGTCTCATCCTTCAGGAGGAACCTGGCCCAAATGGCAGCAGCTGCCAGCAGGTGCAGGGCCCCGGGGCCAGGTCTGTTCAGCCTCACATACAGTCAGTCCCTTACTGTTACTCAGAGGCTCTACCCCGCCTGGAGAGGAGATAAGTGTGGACTCTGCATGCCACTAAAGCCAGGCAGGGCAGGGCCACACCTAAGGGGCTGTCCTGGGGTGTAGCCAATTGCAGTTTAGGGGGACCTCAGGAGGCAGCTCCTGGGGGCAGGCCATGGGGCAGGGTGCTTGTACAGATCCTGAGGCTCAGGCACACGCCATCTGCCTTCACGTGTCTCCCCTTTCCACTCACTGTTAGCAGGCTTGCACTGTTTTCCTTCTCACACATCCACCAGGCTCTTCAAATGAGGCTTGGGTCTGTGGGTTTCTTATTATAGTTTAGTTTCTTGTGAGGTCTTTTTCCCAAAGGTCACAATCACTGAGCGCTGCCTTGACCCAGTATGGGGAAGAGGTGGAGAAGCCAATGGGGGTAGTTTTCCCAACTCAAGCTTAGGGATGAGGGGAGAGGACAGCTTAGTCATGGCCAAGGGGTCAGGAAGGTGTGGGGGCAGTGGAAGACAGGTTGGCCTCTCTAAGGTGGTCTCTGGTACCTAAGACACTCTGTGGGGCGGGGACTGCTTCTGGGACTCCTTGATGGCTGTCCCTGCCTGGGGCAAGGCCTCTCTGCCTGCCTACCCAGGCTGACACTGTTTCTGTTTGTTGTGTCTGGCTGTCCCTGTACCTCCCCTGTTCTCTCCAG
Seq C2 exon
GCCGTGGTGTCTGCAGCCCAGGCAGGCCTGCTCCGGCAGCAGGAAGAACTGGACAGGAAAGCTGCCGAGCTGGAACGCAAGGAGCGGGAGCTGCAGAACACTGTAGCCAACTTGCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000140497:ENST00000268099:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.975 A=NA C2=0.229
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:
AATGCAGCGACAACAGTTCCT
R:
CATGCAAGTTGGCTACAGTGT
Band lengths:
214-2048
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