RnoINT0044349 @ rn6
Intron Retention
Gene
ENSRNOG00000032261 | Cyp2d4
Description
cytochrome P450, family 2, subfamily d, polypeptide 4 [Source:RGD Symbol;Acc:620640]
Coordinates
chr7:123602097-123603967:-
Coord C1 exon
chr7:123603719-123603967
Coord A exon
chr7:123602269-123603718
Coord C2 exon
chr7:123602097-123602268
Length
1450 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
CCCTCACTCCCTGCCTACAGCTG
3' ss Score
10.08
Exon sequences
Seq C1 exon
GTGGCTGTAGTCGGGATTGAGAGGTGTTTCCAAAGAAACCCAAAGAGCAGCAGGGCAGCCATGAGGATGCCGACGGGGTCTGAACTGTGGCCCATAGCCATATTCACGATCATCTTCCTGCTTCTGGTGGACCTGATGCACAGGCGCCAGCGCTGGACTTCTCGCTACCCTCCGGGCCCTGTGCCCTGGCCTGTGCTGGGCAACCTGCTGCAGATAGACTTCCAGAATATGCCAGCGGGCTTTCAAAAG
Seq A exon
GTAAGGGAATTGTTGGTGGGCAGGAGAGGCCATGGTGACCCCTTATTAGAACAAGTGAGTGGTGGTGAAACTGCATGCTGGACACGGAGCTGGTCCCCAGGACAAAGCGGGTTAAGAGGCTTCTCCTGGGGCTGGGGATTTAGCTCAGTGGTAGAGCGCTTACCTAGGAAGCGCAAGGCCCTGGGTTCGGTCCCCAGCTCCGAAAAAAAGAACCAAAAAAAAAAAAAAAAAAAAAGAGGCTCCTCCTGAAGAGGGTGGTGCAGAACCCGAAGACTCACTGGAGTTTCCAAAGGCAACAGCTAGGAGGTGAGATGGGTCCTGGCAGCCGTCTGAGATCCAGTTAACAGGATAGGCTGTAAGGGTTGGTGGTGATGCTGGGGTTGCATTCTGATCCCAGAGCACCTGTAGTTGGGAGGCTAAAGCAGGTAGGTTATGAATTCCATCTTGAACTGCATAGCGAAACTCTCTCTAAAATGGAGACTTAAAGGCCAGCTGTGGAGGTGCTCGCCTCTAAGCCCAGCGCTTAAGAGACAGAGGTGGGCATATTTCTTTGAGTCCTAGGCTAGTCTGGTCTAACATACTGAGTTCCAGGCCCATGCTACATAGTGAAACTGTTTCCAAAAGAAATCTAACATTTTAAAAGGAAAAAAACAATCAATGCAGTGGTGGAGACTTTCACAGCATTCACAGGAGGCAAAAGCCAGCAGATCTCTGTGAATTCAGCACCAGCTTGACCTACATAGAAAGTCCCAAGCCGACCCTAGCTACATACTAAGACAAAAATTACACACACACACACACACACACACACACACACACACTGAATGAATGAATGAATGAATGAATGAATGAATGAATGAATGGAAAATCGAGTCATCGAGTCATATAGGCTTCATATTCCTTTTCATTCCACTGGAGGGAAATGTTTCAAGAATGCAGGAAGGGGCACTGGAGGGTGGCTCAGTGGTTAAGAGCACTGACTGCTCTTCCAGAGGTCCTGAGTTCAATTCCCAGCAACCACATGGTGGCTATAACCATCTATAATGGGATCAATACCCTCTTCTGGTTTGTCTGAAGACAGCAACAATCTATTCATATACATAAAGTCTTTTAAAAATGGGGCGGGGCCATGATCCTAAACGAGTGTCTCTGTCAGGAAATCAAAGTTGAGAGACAGGAAGTGCTGCTCCCATCCTTTTGCTGTTTCCGATTCTCAGGCTCCCCTACATCTGTGAGGCTTAGTTTCCTCATCTAGACATGGGGATGCCAGTGGGACCAACCGGCAAATGCGTGACACCAGCAAGGTCGGAGTCCAAGGTGGTTCCCCAGACAAATAATAGATGTCATCCTTCTGTAGGGCTCGCGCTGGGTCTCCCCGCCAAGTCCTGTCTAGTACAGCTAAGCGCGGTAACCCAGGCTTGCTGGTAACACCCTCACTCCCTGCCTACAG
Seq C2 exon
CTGAGATGTCGCTTTGGGGACCTGTTCAGCTTACAGCTGGCCTTTGAGTCGGTGGTTGTACTGAATGGGCTGCCAGCCCTGCGAGAGGCACTGGTGAAATACAGCGAGGACACCGCTGACCGGCCACCGCTGCATTTCAATGACCAGTCGGGCTTTGGACCACGCTCTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000032261:ENSRNOT00000011880:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.052
Domain overlap (PFAM):
C1:
PF0006717=p450=PU(5.6=41.3)
A:
NA
C2:
PF0006717=p450=FE(12.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGCTGTAGTCGGGATTGAGA
R:
CGCTGTATTTCACCAGTGCCT
Band lengths:
354-1804
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]