RnoINT0041728 @ rn6
Intron Retention
Gene
ENSRNOG00000015902 | Cpxm2
Description
carboxypeptidase X (M14 family), member 2 [Source:RGD Symbol;Acc:1310955]
Coordinates
chr1:204065247-204067181:-
Coord C1 exon
chr1:204067058-204067181
Coord A exon
chr1:204065444-204067057
Coord C2 exon
chr1:204065247-204065443
Length
1614 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGA
5' ss Score
6.29
3' ss Seq
GTGTGTCTGTCTCTGTCAAGGTG
3' ss Score
9.53
Exon sequences
Seq C1 exon
TTGATGAAGGTTGTGAATGAGATGTGCCCCAATATTACCAGGATTTACAACATTGGCAAAAGTCACCAGGGCCTGAAGTTGTATGCAGTAGAGATTTCTGACCATCCTGGGGAACACGAAGTTG
Seq A exon
GTGAGAAAGAGTTTGGTTTTAGTTTGTTTGATGCTGCTGTAACAAGCACCATGACCAAAAGCAGCTTGGGAGGAAACCTGTTTCTGCTTACAGAAACTGGAAGTTTACCTGCTTACTATCCAAGGCTAGCTGGGAAGGAGTTTGAGCAGGAGTTGGAGGCAGGAAGTGAGGCAGAGGCCATGGAAGGATTCTGCTTATTGCATTTCTCTATTATCTTTTTAATACAGTCCAGCGCCACCTGCCTGGGGCGGTGCGATCAATGGGCTGGGCCCTCCCATGTCAATGAGCAATTAAGAAAACGGCCACAGGCCATTTTAATGTGGGCATTTCTTCAGCCGAGGTTCCTTCTTCCCAGGTGACTCTAGGTTTCTCTCCGAATGACAGCTGCTGCTAACGATGTCAGCTCCTCTACCAAGACAACGGTATCCCAAATTAAATAGCTCCTTACCTAACTTGAAGGCATCTCCCCCACCCCACATCCCTACCCCATATTCAAGACACCCATCCCACAACCATTTGACGAAAACAAGTGGATTTTAGTTCCATGCCCCTCAGATCTAAGAGCTGTGAAGCTCTCTGAGCTAGAAGCACCCTCCTTTGCTGCACAGAGACTGCCACATTCAACTGTGCTTTCTGCTTCTGAGGTCAATCACAGGACAAAGGAGAAAATGGCTGGATATATGACAGATTCCTCTTCAGGGAGAACATTCAGGGCTCCAATTCATGAATGGCTCAAATTGCAGGGGCTTCCTTCTTTTTTGAGCAATGTCTGCATTGTCTTTACAAGGTACCCTTCTTTTGGTTATTTTCTCTTCAGCCTTCACTACTCCAAGTCCCTGCAGGCTGGGTGAACTCTGTTTTCCTGTTGATAAAACTGGCCAGATTCTCAAAATCCACTGAAATTTAGGTGCAAAGATATATCCGACTTGTTTGACTCCACTGTTCCTCCATGCCTCTGCCTCAGGACTTCATCTCAGGAGTTCTTTCAGGGGTAAAGGCCTTACCTGTGCATAAAACCATGTTTCCTCCCACATAGAAGCTTGACAAAGGGGAACAAAAATGAGCGTGGTCAGCCATGCCTAGCAGGATAGTTGAGTCTGTTAAGCGGCTATCACTAAATAGTCAAGATGGCATTGTTTATAAACGATGGGAATTTATTTCCTATAATTGTGGACCCTGGGAAGTTGAAGATCAAAATGCCAGCACATCTGGAATATGGCAAGGGCCAGTTTTCTGTTCAACCCTTGCAGGATACAAGGCAGTGGAAGGCTTTATTCTCACAAACCATTCTACTGAGATACTAATCCCTCATCTCCTTCTAAAAGCCCTACTCACTTCTTCATACTATCCCAGGGCCTTGACTTCAATACTAATTTTGTGCACACACGCATGCACACACAAACACATACCTTGTGGCTCTAGTTGTTCAGGCTTGCAATTTAAAGTTTTTCTTACCTGTTTGAGCATTTGGATTTAAAATAATTATCCCAGTATAATTTTGGAGGCTTATCTGAAAGGAAAAAAAGTATGGCTGTAAGGTTGTTTGTGTCCTTCCAAACCTCGCCAGGCCCCATGTGGATGCCTGCAGGAGCCTGTGTGTCTGTCTCTGTCAAG
Seq C2 exon
GTGAGCCCGAGTTCCACTACATCGCAGGGGCCCATGGCAATGAGGTTCTGGGCCGAGAGCTGCTGCTGCTGCTGCTGGAGTTCCTCTGCCAGGAGTACTTGGCGCAGAACACACGCATCGTCCGCTTGGTGGAGGAGACTCGGATTCACATTCTACCCTCCCTCAATCCTGATGGCTATGAAAAGGCCTATGAAGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015902:ENSRNOT00000051853:5
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=0.061
Domain overlap (PFAM):
C1:
PF0024619=Peptidase_M14=FE(13.3=100)
A:
NA
C2:
PF0024619=Peptidase_M14=FE(21.0=100)
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:
GATGAAGGTTGTGAATGAGATGTGC
R:
CCTTCATAGGCCTTTTCATAGCCA
Band lengths:
318-1932
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]