HsaINT0145326 @ hg19
Intron Retention
Gene
ENSG00000140497 | SCAMP2
Description
secretory carrier membrane protein 2 [Source:HGNC Symbol;Acc:10564]
Coordinates
chr15:75144410-75146460:-
Coord C1 exon
chr15:75146362-75146460
Coord A exon
chr15:75144528-75146361
Coord C2 exon
chr15:75144410-75144527
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-SCAMP2:NM_005697:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.970 A=NA C2=0.188
Domain overlap (PFAM):
C1:
PF152631=DUF4593=FE(59.3=100),PF117403=KfrA_N=FE(41.0=100),PF120723=DUF3552=PU(2.1=3.0),PF049918=LicD=PU(2.4=6.1)
A:
NA
C2:
PF152631=DUF4593=PD(33.3=45.0),PF117403=KfrA_N=FE(50.0=100),PF120723=DUF3552=FE(83.0=100),PF049918=LicD=FE(47.6=100)
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
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)