GgaINT0044598 @ galGal3
Intron Retention
Gene
ENSGALG00000009693 | CPXM2
Description
NA
Coordinates
chr6:33377686-33379069:-
Coord C1 exon
chr6:33378890-33379069
Coord A exon
chr6:33377984-33378889
Coord C2 exon
chr6:33377686-33377983
Length
906 bp
Sequences
Splice sites
5' ss Seq
ACCGTAAGT
5' ss Score
10.43
3' ss Seq
GCTGTTTCCTTCTCTCCTAGGTG
3' ss Score
10.98
Exon sequences
Seq C1 exon
GGCTCAGAATTAGGGGGCTGGTCTTTAGGTCGATGGACTCAGGATGGCATTGACATCAACAATAATTTCCCTGATTTAAACTCTTTGCTCTGGGAGTCTGAAGATCAGAAGAAGAGCAAAAGGAAAGTTCCAAACCATCACATCCCCATTCCTGACTGGTACCTGTCTGAAAATGCCACC
Seq A exon
GTAAGTAACACTGGCTTTGGAAAGATGGGAAGATGAAGTTGGGGGCAGGTTGAAAGACTGAGCTTTGTATTTCTCGTGGAAAATGCAGCTTGCTGGTGATGCTGCATACCTGCTCTAAGACAACTGTCTGGGCTTCCCTGATAGTCGATAGAAATAAAATTGCACCACAAAGATGCAGTTGGGTCCCATGTTTTAGCAGCTGCCCTTGGAAAGGGAGCAGCTTCCTGCAGTGCCATCTTTTCTCTCGGCTATTGGGAGAGCCTGGAGGACTTGATACCCAGGTTTGAGTCCTAGACAGGTAAAGAAATGGAAACATAAACCCAGAGCTGGGCTCATCTCTGAGTCAGGCTGCTCCCCAGCTTTGCAGCATGGGTGAGCTCTTTTACAAGGTATGCACCATGTGGATTTCTCCTGTTTTTTTTTTGTTTTGTTTTTATGTTGCTTGAAATAACATTGCAGTGGCTTACGCTAGCCCTGTTAAAATTTAACTTCTTTTTTGCATGGCATTTGAAATAACTATTTATAGTGGCCAAGCTTCCCCTGTTTTGCAGGGAAGGCACTTAACTGTGGCAGTTCTGTGGGCTTTAGAAATATTGCCCTGCTTAAAATCCTTTATTTCCCAAACTCATCCCAGCTGATGCCATTGGGCACAGCGTTATGATCCGACAACTTGTTGGTTCTAAATCACTCCTGCAGGATAAAACAAATATGCTAAGGTTTGCGTTATCTTTTATGGGTTGTCAGTGGCCTCCAAAACGTGTCTGGCAGGCACTGTCATTAAAATATTTTCTTCTTGGCCACATCTCTTGTGCTGACTACTCACTCTGTGCGAAGCATCTTCCAGTCTGCCTCCAGAAGATCACCAGTTCTCACGGGCCCCAACAAAGCTGTTTCCTTCTCTCCTAG
Seq C2 exon
GTGGCAGTGGAGACGCGAGCAATCATTGCATGGATGGAAAAAATTCCTTTTGTGCTGGGGGGCAATCTGCAGGGAGGAGAGCTGGTCGTGGCGTACCCCTACGACATGGTGCGGTCCCTGTGGAAAACGCAGGACTACACGCCCACACCAGATGACCATGTCTTTCGCTGGCTTGCCTACTCCTACGCCTCCACACACCGGCTGATGACAGACGCGAGGAGGAGAGCGTGTCACACAGAGGACTTCCAGAAGGAGGATGGCACAGTTAATGGCGCCTCGTGGCACACCGTGGCTGGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009693:ENSGALT00000015779:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.050 A=NA C2=0.050
Domain overlap (PFAM):
C1:
PF0024619=Peptidase_M14=FE(19.1=100)
A:
NA
C2:
PF0024619=Peptidase_M14=FE(32.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGTCGATGGACTCAGGATGG
R:
TGTGTGGAGGCGTAGGAGTAG
Band lengths:
351-1257
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]