HsaINT0043014 @ hg19
Intron Retention
Gene
ENSG00000162438 | CTRC
Description
chymotrypsin C (caldecrin) [Source:HGNC Symbol;Acc:2523]
Coordinates
chr1:15772092-15773153:+
Coord C1 exon
chr1:15772092-15772244
Coord A exon
chr1:15772245-15773069
Coord C2 exon
chr1:15773070-15773153
Length
825 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGT
5' ss Score
7.07
3' ss Seq
ACTGTTCTCTGCTCCTCCAGAAA
3' ss Score
9.95
Exon sequences
Seq C1 exon
GGGGACTCCGGTGGCCCACTGAACTGCCAGTTGGAGAACGGTTCCTGGGAGGTGTTTGGCATCGTCAGCTTTGGCTCCCGGCGGGGCTGCAACACCCGCAAGAAGCCGGTAGTCTACACCCGGGTGTCCGCCTACATCGACTGGATCAACGAG
Seq A exon
GTGGGTGCTGCCTCCACAGCTGTCCCTGCACCTGTCAGCCCCTCCCCCTCACTCACCCATCCCCTCACTCATTCACTCATTCATGCGTTTATTCATTCATTCATTTATTCACTCATTCATGCATTTATTCACTCATTCATGCATTCATTCATTTATTCACTTATTCAGTCACTCATTCATGTATTTATTCATTTATTCATTCACTCATGCATTCATTCATTCATTTATTCACTTATTCATTCACTCATTCATGTATTCATTCATTCATGCATTTATTTACTCATTCATCCATTTATTCACTCATTCATTTGCTCATTCAGTGATTCATTCATGCACTTCTTCACACATTCACTCTCTCATTCAAGTAATATTGGTTGAGTGCTTCCAGTAGCAGGCCTTGAGTTGGGTGCCAATAAGGAAACAGTCATTGACTCCTCCATCCATCCATTCACTGCCTTCATCAAGCACTTATGTCCCCATCCAGGCCCCACACCAGTCTCCCCCAAAAACTGACCCCCTGAGGGTATGGCCCAGCAGAGGAGAGGGATGGTGTGGATGGCCATTTCTCATCTTGAGAGTAGGGGAACAGAGGGTCACCCTGGGCTGGGGGCTTCCCCATTGGGGACAGAGTGTGTTCCAAGACCCATTTGCACAGTGGCCTGAAATGCTGAGGGCCTCAGACCCCTTGAACAGGGACAAGGCTGGCATGTGAAGGCCGGGGGCTGCTGGCCATGCCCCCATGGACCCACCCTCCGGGCAGAGCCCTGTGCCACCCTAGAAGGTGGCACAGCCCTGAGTCTCTCACACTGTTCTCTGCTCCTCCAG
Seq C2 exon
AAAATGCAGCTGTGATTTGTTGCTGGGAGCGGCGGCAGCGAGTCCCTGCAACAGCAATAAACTTCCTTCTCCTCGGGCCACCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000162438-CTRC:NM_007272:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PD(20.6=94.1)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACTCCGGTGGCCCACTG
R:
TGGCCCGAGGAGAAGGAAG
Band lengths:
230-1055
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)