HsaINT0043012 @ hg19
Intron Retention
Gene
ENSG00000162438 | CTRC
Description
chymotrypsin C (caldecrin) [Source:HGNC Symbol;Acc:2523]
Coordinates
chr1:15769914-15771246:+
Coord C1 exon
chr1:15769914-15770050
Coord A exon
chr1:15770051-15771100
Coord C2 exon
chr1:15771101-15771246
Length
1050 bp
Sequences
Splice sites
5' ss Seq
GGAGTGAGT
5' ss Score
6.05
3' ss Seq
ACTGCTCACTCTCTCCCCAGCCA
3' ss Score
10.29
Exon sequences
Seq C1 exon
CAATGATATTGCCCTCATCAAGCTTGCAGAGCATGTGGAGCTGAGTGACACCATCCAGGTGGCCTGCCTGCCAGAGAAGGACTCCCTGCTCCCCAAGGACTACCCCTGCTATGTCACCGGCTGGGGCCGCCTCTGGA
Seq A exon
GTGAGTATCGTCCCTGGCAAATCCTGAGAGCCTTCCTGAAGGAAGCAGGACGTCACCCACATTTGTCCACCACTTTGCCTTTTTGCCTTCACATTTTCATGTCTTTGTAAACTTTGTAACAATAACAGCTAATATTTACTAAGCACATACCATGTGACAGACACTCTAGCAAGGGTCTCTGAGAGATGTGGTAAAGTTTAGACGAATTAGAATTTGTCAAGTGCTCAGAACAGCACTTGGCACATAGTAAGTGTCACATAAATAAACTAAAATAAACCATTAGGGGTAGGGGATGACATCTGTGGTATACCGTATGCCCAAATAGGTCCCAGCTGAATTAAAAGTTAAATGCAAATCATGAAACTATGGGAGACTTAGAAAATGCAGATCACTATTTAGAAAATCCTGGGGGAGAAGTCAGCTGTGGCGGCTCACACCTGTAATCCCGACATTTTAGGAAGCTGAGGAGGAAAGATCACTTGAGGCCAGGAGTTCAAGACCAGCCTGGGCAACATAGTGAGACCCTGCCTCTACAAAAAAAAAATTTTTAAATAGCAGTGTATGGTGGTGTGTACCTGTAGTCCCAAACTACTCAGGAGGCTGAGGTGAGAGGATCATTTGAGCCCAGGGGTTTGAGGCTGCAGTGAGCTATGATCTTGCCACTGCTGTCCAGCCTGAGCAACAGAGTGAGACCTTGTATGTATCAAAAAAAAAAAGAAAGAGAAATAGAAAATCTTGGGGGTGAGAAAGGCTTTTTAATGGGTGACAGCAAAGACAGAGACCCACAGGAAATTATTGACAATTAAATCCCCAGAATCCAACTTAAAGACAACTCAACTCAACACTGTAGCTTCCTTCTGCCGGCAGCCTGCTCCTGACCCTCTGGGACCTTGGCTTGCCTCTTGATGAAGGGCAGGTGTGTGGTCCGCACACTGTCTCAGCCGGCGCTCCCCTGGGTCCTGTCCCAGGCATCTGCTCCCTGAAGGCCTGGGGAGGGGCTGGACTGGGCTTCCCGGCTGCCTCCCTGGTCACTGCTCACTCTCTCCCCAG
Seq C2 exon
CCAACGGCCCCATTGCTGATAAGCTGCAGCAGGGCCTGCAGCCCGTGGTGGATCACGCCACGTGCTCCAGGATTGACTGGTGGGGCTTCAGGGTGAAGAAAACCATGGTGTGCGCTGGGGGCGATGGCGTCATCTCAGCCTGCAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000162438-CTRC:NM_007272:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(19.7=100)
A:
NA
C2:
PF0008921=Trypsin=FE(20.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATATTGCCCTCATCAAGCTTGCA
R:
ATTGCAGGCTGAGATGACGC
Band lengths:
278-1328
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)