HsaINT0036842 @ hg19
Intron Retention
Gene
ENSG00000092009 | CMA1
Description
chymase 1, mast cell [Source:HGNC Symbol;Acc:2097]
Coordinates
chr14:24975675-24976712:-
Coord C1 exon
chr14:24976562-24976712
Coord A exon
chr14:24975811-24976561
Coord C2 exon
chr14:24975675-24975810
Length
751 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
TTCCTTCTTCCTCACAACAGGTC
3' ss Score
10.62
Exon sequences
Seq C1 exon
GGGAGATCATCGGGGGCACAGAATGCAAGCCACATTCCCGCCCCTACATGGCCTACCTGGAAATTGTAACTTCCAACGGTCCCTCAAAATTTTGTGGTGGTTTCCTTATAAGACGGAACTTTGTGCTGACGGCTGCTCATTGTGCAGGAAG
Seq A exon
GTGAGACAACAGGGTCTATTTATCTCCAAATGGGAGATGAACAACCAGAGTAGCATCCAGGAATACACCTGCACTGGGGACTGAAGAGGGGGTCCTGGGTCTTGTCAACTTTCAGGAGAGGGAAGACTTGGGCTGAAAGACTTTAGTCTGTGTTTGAATAGTTCCTTGAGCCTCAGTCACTGTGAGCTAAGCTCCCCTTCGGAGGAAAAGGAGGTCCTGTCCAAGGTCCCTCTTGTTGCAGTAGCACCCCTCACCCCTACCCAACTCAAGACACACGGCTCACTTTTCAGGGCCCCACCCAGTCTCAGGGCCACTTCCTCTATGGCCTTTTCAAGAACACTGGCCTCTAGTTCTCAGGGTCCTGAACCCATCATTTTATGGGAGGCAGAGAACAGGGTCTACATGAGACCCCCACTTTCCCGTTTAACTGATATCTCCTGCTTCAGGGGCTGGCCCTCATGCAGGGTTCCCTGAATTAGGAAGTGTGAACCCTGTCCCCTGAGTCCTCCCTGGCCTGTTCAGTCCCCAGCAATTCCAGGGGTCGTAGAAATTGTGTCTGTTTCCTGAGAAAGCTCTTTCATGAGTTAAGCCTGAGCCCTCAAATGCCACAAGTGGCCCATGAAAAGGGAGATGGGTAGAGTCCGGCGACCCAGTGACAGAGTTTAGTCCTCTTTTCTCAGAATGAGCTCACCTCAGAAGAAACCCCAAGCCATCACTGTCGCTCCTTTTCCTTCCTTCTTCCTCACAACAG
Seq C2 exon
GTCTATAACAGTCACCCTTGGAGCCCATAACATAACAGAGGAAGAAGACACATGGCAGAAGCTTGAGGTTATAAAGCAATTCCGTCATCCAAAATATAACACTTCTACTCTTCACCACGATATCATGTTACTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000092009-CMA1:NM_001836:2
Average complexity
IR-S
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:
PF0008921=Trypsin=PU(21.9=94.1)
A:
NA
C2:
PF0008921=Trypsin=PU(2.3=75.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGATCATCGGGGGCACAG
R:
CTTTAGTAACATGATATCGTGGTGAA
Band lengths:
286-1037
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)