RnoINT0041718 @ rn6
Intron Retention
Gene
ENSRNOG00000021220 | Cpxm1
Description
carboxypeptidase X (M14 family), member 1 [Source:RGD Symbol;Acc:1306937]
Coordinates
chr3:122918066-122918870:-
Coord C1 exon
chr3:122918783-122918870
Coord A exon
chr3:122918217-122918782
Coord C2 exon
chr3:122918066-122918216
Length
566 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
AAGGCCTTCCATATCCCCAGGTA
3' ss Score
7.39
Exon sequences
Seq C1 exon
GTATGACTGGGTCACATCATTCAAGGTCCAGTTCAGCAATGACAGTCAGAGCTGGTGGATGAGTAGGAACAGTAGTGGGATGGACATG
Seq A exon
GTGAGTGACGCCATAGAGTTCGGGACCAGTTCATTAGGGTGCTGGGCTAGGGGAGAATCCTCTGCAAATAAAAACCAGACACACACACATAGACTCCAGGAGAAAGCTGGAGACTTTTACAGTGCTAAAGTGCAAATCCAGGACTTTGTGCATTCACAGGGAAGTTATTTACCAAGCAGTAGCTCCTTTGGGATAGACCTATTAATTCCACCATGGGGCTGGTGCTTCATCTTCTTTCTGGGACACCCCTCCTGACCATGAGCGGGATTATTGACTTCCTGCCTGTTCATGGCTCTGGTTTCCTATCTCATGGACCTCCTTGGTACAATACTCCAGAATGGGTATGTTGTTTTAATGAACTGAGACCATGCCAGAAAACACAGCTGCCCAAGGTTGCCCACTGGCAGGCGCTGTGGAAATGGGGGTCCACATTTAATAGAGTGCATGTCTCCAGCTGTACCCGCCAGGGAGGGTTGGCTTGTGAGTATGAGAGCCTTAATTCCTTTGCTGGATCTGGAGCCAGCGTCAGGTCTGGGCAGCCTCAGCAAGGCCTTCCATATCCCCAG
Seq C2 exon
GTATTTCCTGCCAATTCAGACGCGGAGACCCCAGTGCTGAACCTTCTGCCAGAGCCTCAGGTGGCTCGATTCATTCGCCTGCTGCCTCAGACCTGGTTCCAGGGAGGTGCGCCTTGCCTCCGGGCAGAGATCCTGGCCTGTCCAGTCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021220:ENSRNOT00000028818:5
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=0.059
Domain overlap (PFAM):
C1:
PF0075420=F5_F8_type_C=FE(20.4=100)
A:
NA
C2:
PF0075420=F5_F8_type_C=PD(30.3=84.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TATGACTGGGTCACATCATTCAAGG
R:
CTGAGACTGGACAGGCCA
Band lengths:
238-804
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]