RnoINT0037746 @ rn6
Intron Retention
Gene
ENSRNOG00000020563 | Cma1
Description
chymase 1 [Source:RGD Symbol;Acc:2365]
Coordinates
chr15:34602146-34603136:-
Coord C1 exon
chr15:34602986-34603136
Coord A exon
chr15:34602282-34602985
Coord C2 exon
chr15:34602146-34602281
Length
704 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGA
5' ss Score
10.65
3' ss Seq
TCCATCCTTTCTCACAACAGGTC
3' ss Score
10.59
Exon sequences
Seq C1 exon
GGGAGATCATCGGGGGCACGGAGTGCATACCACACTCCCGCCCCTACATGGCCTATCTAGAAATTGTCACTTCTGACAATTACCTGTCAGCCTGCAGTGGCTTCCTGATCAGACGAAACTTTGTGCTGACTGCAGCTCACTGTGCAGGACG
Seq A exon
GTAAGACAAGATGCTCTTTATCCTTAACACGTGGTAAACCACTGGGGATAACAACCTGGGACGCACCCAGGGGGGACCTGAAGAGGGATCCTGAGCCTAGGTCAACTAACAAGAAAGATGTCATTAAACAGATGCCCTGAGCCTCAATCACGATAAGTGCAGCAACTCTCAGAGGCAAGAGAGGAGTCTCCAATATGGCCACTCCATAACCCCTTAAACATGGAAGACACTTACAGCTCGCTTGTCAGGATCTACCAAGTAGTTTTCTGGGCATCTCTCCTTGCTGTTTTCAAGAACCCTGGCCTACAGTTCCAAGATCCACAGCCTGACATTTCTAAGGAAGGCAGAACAAACCCACAGGACACTTACTACTTCCCGCTTTCCTGACTAGCTCATGCTATAGAAAGCGGGCCCTGTTCAAAGTTCTCCAAATTGGGAAGTACTAACCCTGTACCCCAGGTCCTCTGTTTCTTGCTCATTCCCCAGCAATTCCTGTGTCTGCTCCAGAAAATACCCTTTCTCCAAGCCTTTTCTCTCCTCAAAACTGAACCCATCGACACCACAAGAAACCCAGAAAAGGGAGATGGGAAGAGGCCTGTGTCCCAGGGAGGAATTCCAGCCTCTTTTCAAATACAGAATCCCGTTTGCTAGGCAAACACTCTACCAATTGCTACCTCCTCAGGCTCCATCCTTTCTCACAACAG
Seq C2 exon
GTCTATAACCGTCCTCCTAGGAGCTCATAACAAAACATATAAAGAAGACACATGGCAGAAGCTCGAGGTTGAAAAGCAATTCATTCATCCAAACTATGATAAGCGTTTGGTTCTCCATGACATCATGTTACTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020563:ENSRNOT00000067539:2
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=PU(21.9=94.1)
A:
NA
C2:
PF0008921=Trypsin=FE(20.5=100)
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:
GGGAGATCATCGGGGGCA
R:
TGGAGAACCAAACGCTTATCA
Band lengths:
268-972
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]