RnoINT0044607 @ rn6
Intron Retention
Gene
ENSRNOG00000043344 | Cyp4f40
Description
cytochrome P450, family 4, subfamily f, polypeptide 40 [Source:RGD Symbol;Acc:1559596]
Coordinates
chr7:14871502-14873515:+
Coord C1 exon
chr7:14871502-14871629
Coord A exon
chr7:14871630-14873393
Coord C2 exon
chr7:14873394-14873515
Length
1764 bp
Sequences
Splice sites
5' ss Seq
CATGTGAGT
5' ss Score
7.83
3' ss Seq
CCCCTGCCTCTCCAACAAAGGCC
3' ss Score
5.64
Exon sequences
Seq C1 exon
GGGATGGGCTCTTGGTGAGTGCCAGTGACAAGTGGAGCCGCCACCGTAGCATGCTGACACCTGCCTTCCACTTCAACATCCTGAAACCCTATGTGAAGATTTTCAATGACAGCACCAACATCATGCAT
Seq A exon
GTGAGTCCCCGGAACCCATGTGCCCAGCTGGAGTCTGGGGAGGGGTGAGTAAGGGACTGCAGACAGATATAGTCCACGGTACAGGCTCTGAAGGACCATGGTGGCCCATTGCAGTTTTCCCCTAGACTTGATTCCCCAGGTGTGATTTAGTCTTAACCTTTTTGTTTTGTGTCCAAGATGATATCACAGGGTCATGACCCCTTACATGGTAGGTGCTCAGGTGTTAGTTTTTGATGGCCTGAAAATGGAACACAGACATGGTCTGGCAGTTCCAAACACACTGGTTGCCTTTTCTGGACAAGTGCTACATCACTGATGTTTTATGATCAGTTGTGAATCAGGTGGGCAGCTTGGCTGATCTAGCTCAGTTCTCTCATGTTTGAAGTTTGCAGACTTCAAGATAATTTGGCCAGACTTGGCAGGGAGAACTCAGCATGTGTTCCCATGGTTCTTTCCCCCTACAAGGCACCCAAGGCTTGTGGCACAGACAGAGTTCCACTGGAATGTGAGAAGCAGGATACTTTGTAAAGCTTAGATTTAATTGAGATGGTGGCCTCATCATCTCACCAGTTTTTTGGTCAAATCAGAAGCTAAACACAAAATCAAAAGTGGGTCAAAATCTAACTGATGTTGCTGGAAAATCACACTGTACTAGTTGTTGTACCTGGACAAGATAAGAACTGGGTAACAGTCACAGAATGATTCTTGACTTTGTGAGCTGGTATGTTAGCTTGTTTACTGGTTATGGACTCTGCTAGAATATACCAGATCCTTGAGTCAGATGGGAAAGGCAGTCATTTACTCACTGCACAGCAAGCAGCATGTGCACCATTCCAGCTTTTAGGTACTCAGAGTCCATGAGAACAGTACCAGTGGGCTGCAGTAGGAGCTCCTCATGAGTCTTAGGAAATTTTAATAATAAACTACAATGATAAATATTACTATATGTAATAGTATATCTGAGTCTTAGGGAATCTGCTTCTATAACAAGCAGAATTCAGTCTTATTTTTACTCATGGAGAGTTGTCACTGTATCCACAGGTTTTCTGCCATAACTTCTGAGATATAGCCCAAGTTAAGAACATCATGATAGTTCACTCTTGGCATGTCTAGCAAAGTTTCTCAGGGAACAATGGAAGTCTGACATTCTCAGCAAAGGGAGAGTTTTGGAATCAATTAACAGAAGTGATAGAGAACACTGTATGTTGAGTGCTTGTCATAGGCTAGACCTGCTGTGAAGCCCCAGTTCAATAATCTATGTGGGCAAGCTTAATTTCCAGAAGCCCATGAGGTACACTGATTACCTTTTCCTCATTAGTGTTAAATCTGAGTGTCAAGTATATCACAGACCTTGTTCACATTATCCTGCAGGAAGTGAGCTTAAAATGGTATACATGGGTTTCCCCTTAGTTTAGCAGACTAAACTAAGATCAGACCAACTTCCTAAAGATATGACAGTCAAGAACTAGGAGAGGGGAATTAACTGACTGGAGGCAGTACAGAACATGGGAATCAGAGGTGGGACCTGAACTCAGGACTCCTGACCCAGTCTTGGGTCCTCATCTGCTATAATAACCACTTCCACTGTTTATCAGTTTAGGTTATCCCTGAGATCAGTTATCTAGGGCTGAGATCCAGAAGACTGGTTAAGGTTACCCATTTGAGTGATCGGGATTGGGCAGAGCCTCTGGAAGCCACGATCCAACTCTCTCCTCCCTTCCACATCCCTCCCCTCTCTCTCCCTCCCCTGCCTCTCCAACAAAG
Seq C2 exon
GCCAAGTGGCTGCGCCTGGCCTCAGGGGGTAGCGCCCATCTGGACATGTTTGAGAACATCAGCCTCATGACCTTGGATACTTTGCAGAAATGTGTCTTCAGCTTCAACAGCAACTGTCAGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000043344:ENSRNOT00000066654:4
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=0.000
Domain overlap (PFAM):
C1:
PF0006717=p450=FE(9.1=100)
A:
NA
C2:
PF0006717=p450=FE(8.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATGGGCTCTTGGTGAGTGC
R:
TCCTGACAGTTGCTGTTGAAG
Band lengths:
248-2012
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]