RnoINT0037748 @ rn6
Intron Retention
Gene
ENSRNOG00000020563 | Cma1
Description
chymase 1 [Source:RGD Symbol;Acc:2365]
Coordinates
chr15:34601037-34601947:-
Coord C1 exon
chr15:34601693-34601947
Coord A exon
chr15:34601384-34601692
Coord C2 exon
chr15:34601037-34601383
Length
309 bp
Sequences
Splice sites
5' ss Seq
AAGGTGATC
5' ss Score
4.41
3' ss Seq
CTCTTCCCCACCCCCAACAGGGA
3' ss Score
8.9
Exon sequences
Seq C1 exon
TTGAAGGAGAAAGCCAAGCTAACCCTAGGCGTGGGAACCCTCCCACTCTCGGCCAACTTCAACTTCATTCCACCCGGGAGAATGTGCAGGGCAGTTGGCTGGGGCAGAACAAACGTGAATGAACCAGCCTCTGACACACTGCAGGAAGTAAAGATGAGACTCCAGGAGCCCCAATCCTGCAAACACTTCACCAGTTTTCAACACAAGTCCCAGTTGTGTGTGGGCAACCCCAAGAAGATGCAAAATGTATACAAG
Seq A exon
GTGATCCACTTACCAGTTTTTTCTAAAAGCATTCCCGGGAGCCAGAGTTCTTAAACAGGGTAGGGCAGAAGATTGCCAGCCAATCACAGTGTTAGGAATCACCAACTGAGGAAACAAAGTATCGGTCTTCCCAGGGCCACTCGGGTTTCTCAGTTCACTCTGTGCAAACATGGGGTGATGTGAGGGAGATGTGGTGGCTACCCGCCAAACATCAGGCTCTTGACCTAACTACAAGTTGAAATGGGTGGGCAGAGGTAGAGGTTCCCTCCTATGCACTCATGTGTTTCCTCTCTTCCCCACCCCCAACAG
Seq C2 exon
GGAGACTCTGGAGGACCTCTCCTGTGTGCTGGGATAGCCCAAGGCATTGCATCCTACGTACATCCGAATGCAAAGCCCCCTGCTGTCTTCACCAGAATCTCCCATTACAGACCCTGGATCAATAAGATCTTGAGGGAGAATTAACTCTGGATCTCGGGCCAGTGTGTGAGGAAATCTGGAGCTGGAATCGTGCAGGTTTTCTGTGACATGTGGGATCTGGCCTGTCTGTAGTTCCTGCTGAAGCCCTTCCTGATCCCTGAGCTTCCAGAAGGTTCTTACAAGTCACAGAAAGTTCCTAAAAGTCACCATCTTCATAAACCTCAATAAAGAGCCAGATCCTAGACTGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020563:ENSRNOT00000067539:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.106 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(38.4=100)
A:
NA
C2:
PF0008921=Trypsin=PD(17.8=81.2)
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:
GAACCAGCCTCTGACACACTG
R:
GCCAGATCCCACATGTCACAG
Band lengths:
356-665
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]