RnoINT0037745 @ rn6
Intron Retention
Gene
ENSRNOG00000020563 | Cma1
Description
chymase 1 [Source:RGD Symbol;Acc:2365]
Coordinates
chr15:34602986-34603819:-
Coord C1 exon
chr15:34603728-34603819
Coord A exon
chr15:34603137-34603727
Coord C2 exon
chr15:34602986-34603136
Length
591 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
CCTGGGGTTCTCTGTTCTAGGGG
3' ss Score
10.78
Exon sequences
Seq C1 exon
AGCCTGCACAGCCCTGAGTAGCCCCTCAGAGAGGATGAATCTCCATGCTCTGTGTCTGCTGCTCCTTCTCCTGGGTTCCAGCACCAAAGCTG
Seq A exon
GTGAGTGTCGGGGTCCCTCCCTCTCGAATCTGCAGGCTCAGCTCCTAAAACAACAAATTTTAGTGTGTCATTTGGGACTCTCAAGATCCTCAGGAATATTCCTGCCCATTCTTTAAAGCTGTGGTGGTTCCTTAGGAACACAGAAACTCGTGCTGACTGCGCAGGGCTCCTAAAGCCACTGGGAGAAAGACAGAGATTCCAGGAGAGCGGGCACATTCTCTTCATCTCTGTGACCAAGGCAGAAGAGCACCTTGTGGTTTTGCTCTCCTGTGCCTATAAGGGGGCAGGGCAGGAGGAACCTGGACAACGTGCCCTGCAGGAGGGAAGATGGGCCAGGGACACAGCAGAGTGTAAAATATCAGAAGTAGGAAAACGCCTAAATCTGAGGTGGGAGTGGATTCTTGAGCAAGAAGTGACCCTGGAGGAGGGCGGGCTGTGGTGAGAGGAGCTGACAAGGATACCTGAGAGAACCCTGGGCAGAGCTTAAGGCAGGGAGGTCAAGGGAAGCCTCTCTCAACCTTACTCCAGCTGTGCACTCTGGAGAGAGCGAGCGTCCATGCCTATCTCAGGCCCTGGGGTTCTCTGTTCTAG
Seq C2 exon
GGGAGATCATCGGGGGCACGGAGTGCATACCACACTCCCGCCCCTACATGGCCTATCTAGAAATTGTCACTTCTGACAATTACCTGTCAGCCTGCAGTGGCTTCCTGATCAGACGAAACTTTGTGCTGACTGCAGCTCACTGTGCAGGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020563:ENSRNOT00000067539:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0008921=Trypsin=PU(21.9=94.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCTGCACAGCCCTGAGTAG
R:
CTGCACAGTGAGCTGCAGTC
Band lengths:
238-829
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]