HsaINT0145328 @ hg38
Intron Retention
Gene
ENSG00000140497 | SCAMP2
Description
secretory carrier membrane protein 2 [Source:HGNC Symbol;Acc:HGNC:10564]
Coordinates
chr15:74850514-74851481:-
Coord C1 exon
chr15:74851353-74851481
Coord A exon
chr15:74850674-74851352
Coord C2 exon
chr15:74850514-74850673
Length
679 bp
Sequences
Splice sites
5' ss Seq
TGTGTGAGT
5' ss Score
5.84
3' ss Seq
TGTCCTGTCCCCTTCCCCAGTGC
3' ss Score
10.86
Exon sequences
Seq C1 exon
TGAGACAGAACAACTGGCCCCCTCTGCCCTCGTGGTGCCCTGTGAAGCCCTGCTTCTATCAGGATTTCTCCACAGAGATCCCTGCCGACTACCAGCGGATATGCAAGATGCTCTACTATCTGTGGATGT
Seq A exon
GTGAGTCCCACTCCTGCCTTCCAAGCGCAAGGGCGAATTGGGTGTGACTTGAGAGCCCCATCTTGGTCCTGGCTGCTCCTCCCTGGTATACAGGCTTTCAGCAGACTCCAGCCTTCCTCAGTGCCTGGGCTGGGTTGGGGAGATGCCTCTGCCCACAGGCTGCCCCCTGTCTGGAAACCTCCTTGAAAGGGGCAGTCCAGACCACCGATCAGGGAGGGTGGGACTAACTAGAGGCTTCCAAGTTCCTTCAGAGCTCACTGCACTAAAAGGCCCTCCTTAGGTGAAGGCCTTCCCTGCCCACAGGCCTGTGAACTCTGAGGGGTGAGGAAGGAGACTCCCCCTGCAGCTCCATCAGGGGCCATCCAGGGCCAGGGAAAAGCATTGCTAAGAGAAAGACTTCCTTCCCCAAGGACCAGCCCTGGGTCTGCATCCTCCCTCCACACCCCTCAGATACCCGGGCTGTCCCATCACCTCTCAGGAACGTAGTTTGATCCCTGGTTTTGAGGTCCCAGAAAACCAGGATATGGGAACTATCCCTGCCTAGGTACAGAGCGGGCTCCTCTGTTTCAGCAGCTGCCTTCGCAGCATGAACCTCACCTCTCCTAGGGAGTGGCTGCCACATTGGAGCCCCTCAGCCACTGTGGCACAAGTCATAACTCTGTCCTGTCCCCTTCCCCAG
Seq C2 exon
TGCATTCAGTGACTCTGTTTCTGAACCTGCTTGCCTGCCTGGCCTGGTTCTCGGGCAACAGCTCCAAGGGAGTGGACTTTGGCCTCTCCATCCTGTGGTTTCTGATCTTCACTCCCTGTGCCTTCCTTTGTTGGTACCGACCCATCTATAAGGCCTTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000140497:ENST00000268099:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF041448=SCAMP=PU(23.5=95.5)
A:
NA
C2:
PF041448=SCAMP=FE(29.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAACAACTGGCCCCCTCTG
R:
AGGCCTTATAGATGGGTCGGT
Band lengths:
279-958
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