RnoINT0041729 @ rn6
Intron Retention
Gene
ENSRNOG00000015902 | Cpxm2
Description
carboxypeptidase X (M14 family), member 2 [Source:RGD Symbol;Acc:1310955]
Coordinates
chr1:204063614-204065443:-
Coord C1 exon
chr1:204065247-204065443
Coord A exon
chr1:204063794-204065246
Coord C2 exon
chr1:204063614-204063793
Length
1453 bp
Sequences
Splice sites
5' ss Seq
GGAGTGAGT
5' ss Score
6.05
3' ss Seq
CCATTCTGAATCTTCTCCAGGGT
3' ss Score
8.44
Exon sequences
Seq C1 exon
GTGAGCCCGAGTTCCACTACATCGCAGGGGCCCATGGCAATGAGGTTCTGGGCCGAGAGCTGCTGCTGCTGCTGCTGGAGTTCCTCTGCCAGGAGTACTTGGCGCAGAACACACGCATCGTCCGCTTGGTGGAGGAGACTCGGATTCACATTCTACCCTCCCTCAATCCTGATGGCTATGAAAAGGCCTATGAAGGA
Seq A exon
GTGAGTATTTTGTACCCCCGCCCCTTCCAGCCAGAAACAAGCATGATATCCCAACTCTGAGGCATGCTTAGCCCAGTGCACAGAACCCCCACCCCGCCCCATTTTTGATGTCGGTGATGTGTGTGTGTAGGTGTGCATGTGCATCTGTGTATATGTGCATGGGGAGGCCTTAAAGATGATGTTGGGTGTCTTTCTCAATAGCTGCTCTACTTTAATTCTTGAGACAGGGTCTCCTACTGAACTTAAATGCACTGATTTGGGTAGACCAGTTGGCCATTATGTCCTAAGGATCTACCTGTTTCTATTTCCCAGTACTGGGATTGCAGGCACATACTGTCACTCCCAGCTTTTTACTTGGGTACTGGGGATCTAAATTCATGCTTGCTCAGCAAGTACTTTATCAACTGAGCCATCTTCCCAGCCACTTTTCCTTCTTTCTGAGCATCTCTCTGTTGAAGCTGGCAGCCTGTGTCTGCAGTCTTTTGCCTGTAGGAGCTGTTTGCCTTCTTTCTGATTGTTTCTTTGCACTGTAAGGTTTCTGGGGGACACACAGCAGGAATTAAAACTGATGGTGACACTGACAGAGGTGTATGTCCACAGCCTAGAGTGTCCATATGAGGAGTGCCAGTATGACATACCCATGGCATAGCACCTCAGGTTGACTGAATGCTTTTGAGGTTTTGGTTAGTATCACTAACATTCTTACATGTTCCCTAGTGATGACTGTTTTGATTATTCTGGGATATTGTTTATATTTTATGTTCTAATTATCATATGTAATTTGTATAAGTCACATGTATATATAATTGCATTAATCAAGTCATGGACAAATAGTGATATTTCACAATATTTGGGATAAAATATAGCACCATCTAAATGGAGGTTCCTGTCAAATACATCCTTAAAGTGTAGCACTTAGTCGTGTTTATTGGTTCTGGCACAAATGACTCCCTGGCTAGTCAAAATAATAACTCCCATCAAAGTACTAACCAGGCCCAGCTATGCTTAGCCTCTAAAATCAGGTAAGATTGGGCATGTTCATATGGTCATAGACACGCCACTAAAACCAGAAATCCAGGCAAGGAAAGGGGAATAGTACCCCATTGATAGTAAGTGATGCCCCAGTTCCAGAGCATCTTCCTTTCAGAAGGTTCAGTCATGTAGTGGAAGGCGATGGGCACGGAGAGGTTTAAGAAGAGATCCAAGGCTTTTTGAGATTGACTGTATGGCATGAGTGTTCCTCTATGTGTCCATCTTTGAAGTGAGGTGACTGTGTTGTCTGTGGTTTATCAGATATGCACAGTAGGTTTTTCTGTATTCTCCTGTGATATCTTTTCTGGGGCCAAGAACATTCAGAGACTTGGAAGATGCGCATGGCAGACAGACACAGACACATCACACATCTGGGTTCTTCTGCAGTCTGAGAGCTCTTCCCATTCTGAATCTTCTCCAG
Seq C2 exon
GGTTCCGAGTTGGGAGGCTGGTCCCTGGGACGTTGGACCCATGATGGCATTGACATCAACAACAACTTTCCGGATTTAAACACGCTGCTCTGGGAGGCAGAGGACCGGCAGAACGCCCCAAGGAAAGTTCCCAACCACTACATTGCCATCCCTGAGTGGTTTCTGTCTGAGAATGCCACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015902:ENSRNOT00000051853:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.061 A=NA C2=0.017
Domain overlap (PFAM):
C1:
PF0024619=Peptidase_M14=FE(21.0=100)
A:
NA
C2:
PF0024619=Peptidase_M14=FE(19.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGAGTTCCACTACATCGCAGG
R:
CAGAAACCACTCAGGGATGGC
Band lengths:
355-1808
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]