RnoINT0043257 @ rn6
Intron Retention
Gene
ENSRNOG00000013745 | Ctrc
Description
chymotrypsin C [Source:RGD Symbol;Acc:1308379]
Coordinates
chr5:160400511-160402136:-
Coord C1 exon
chr5:160402039-160402136
Coord A exon
chr5:160400637-160402038
Coord C2 exon
chr5:160400511-160400636
Length
1402 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGT
5' ss Score
9.1
3' ss Seq
TCTCTCCTTCCCATTTCTAGCAA
3' ss Score
9.85
Exon sequences
Seq C1 exon
GTCTCTCTCCAGTACCTCAAGGACGACACATGGAGGCACACCTGTGGGGGAAGTCTCATCACCACCAGCCACGTCCTCACTGCCGCCCACTGCATCAA
Seq A exon
GTGAGTGGGGATGACAACCGGAGGCCAGCGAGGAGCCAACAGTCCAGGCACTGGGTTCGCTCTGTCAGCTGTTCTCCTCTGCTAACTCAACTCATTCATTTATTCAGTTGAAGACGTTTCTTGTGCACCTACTGCGTGTCAAGAAATGGCAAGGAAGACAAAAGCTGGCCTCTGGGGCTATTCTAGTAGAAGGCAGAGCAGCTTATGAACGAGTCAATGTGTAACTTATTGAAAAAAAAAAAAAAAACGGGGGCTGGGTATTTAGCTCAGTGGTAGAGTGCTTACCTAGGAAGCGCAAGGCCCTGGGTTCGGTCCCCAGCTCCGAAAAAAAAAAAAAAAACAAAAACAAAAAAAAAAAACAAAAACAAAACAAAAAAAAAAAACGGGGTTAGGAGAAGGGGACAGGGTACAAGGTGACTCTGGTTTAAGTTAAAAGAAGATAGCCCAGAACTAGGAAGGAGAGAGGGAAGGAGGAGGAATTAAAATAGTAAAATAAGGGGAAGTATAACTTAGTTGGTAGAGTTCCTTCTTAGCATGCACAAAGCCCTGGGTACACACACACACACACACACACACACACACACACACACACACACGTGCCACATCAAAACAGGTGCATTAATAACACACACCTGTAACTCAGTCCCTTGTGAAGTGGAGGAAGGGAGATCAGAGGTTGAAGGCTATCCTTGGCTATGCATTTGAGGCCAGCCTGGGCTAAAAAGAAGAAGGAAAGAGGCAGGTTAAGGTAAAGAGGGAAAGGAAGGGAGGGAGGAAAAAAGGAGAGAAAGAGAGAGACAGAAAGACAGACAAATGGATCTGGACAAAGGCACAAAAGGAAGATCACTCACTGATCTGTGGGATTCCAGGATCAGCCCGAGGGAGGAGCCTCTGAGGACTGGAAAATACTGAGGCAGCCTCCTACTGGGTGCAGAGTGTGAGGACCTGAGAATGAGGGTGGGGGTTGGGGGGGAGAGGAGGCATCTATGCAAGTACCACAGTTGACTGGAGAGAGGCAGAGCTGTGGGAAAGGCTTCGGGTTGTGAGCACCTCAACAGCCAAGGGATGACAGGTATGATGGCGCTTGCCTGCCATCTTAGGGCAGGAGGATCTTGTACTAGGGAGGACAGACCAAGGAGGTGACAGTAAGGTGCCTAAGGCCATGTGGAAGCCAGAGGCATGGCAGCTTGGCTTCTCCTAGTCTGCCAGTCTAGGGCGGCAAGGCTGAGTCCTGGCTCTAAGCTGTGGTTCTTCTCCAATCTTTCACAGGGGCGGGGGGATGGGAACAGACTTCCTCTTTCCCACAAAGCCCTACTGTCAAAAGAGGACCAGGCTTCTAAAGTTCTCAGTTCCCTGTTGGCCCTGCCTGAGGCCATTTGATGTCTCTCCTTCCCATTTCTAG
Seq C2 exon
CAAAGACTTCACTTACCGTGTGGGCCTGGGGAAGTATAATCTGACAGTGGAGGATGAGGAAGGCTCCGTGTACGCTGAGGTGGACACCATCTACGTCCATGAGAAGTGGAACCGACTCTTCCTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013745:ENSRNOT00000018393:3
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:
PF0008921=Trypsin=FE(13.7=100)
A:
NA
C2:
PF0008921=Trypsin=FE(18.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCTCTCCAGTACCTCAAGGACG
R:
CACAGGAAGAGTCGGTTCCAC
Band lengths:
222-1624
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]