BtaINT0005474 @ bosTau6
Intron Retention
Description
Bos taurus cytochrome P450, family 4, subfamily F, polypeptide 2 (CYP4F2), mRNA. [Source:RefSeq mRNA;Acc:NM_001035042]
Coordinates
chr7:8550885-8553156:+
Coord C1 exon
chr7:8550885-8551113
Coord A exon
chr7:8551114-8553011
Coord C2 exon
chr7:8553012-8553156
Length
1898 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
GACCCTTACCTTGCTTACAGGTC
3' ss Score
10.36
Exon sequences
Seq C1 exon
GATTCAGCCTCCACTCTGACTGCCCCACAGGATGCTGGAGCTGAGCCTGTCCTGGCTGGGACTCGGGCCAGTGGCAGCCTCCCCGTGGCTGCTGCTGCTGTTCACTGGGGCCTCCTGGCTCCTGGCCCGCATTCTGGCCTGGACCTACACCTTCTACAACAACTCTCGTCGCCTCCAGTGTTTCCCACAGCCCCCAAAACGCAACTGGTTCTTGGGTCACCTAGGCCTG
Seq A exon
GTGAGTGTGGGCAGGAGCATGGGTCTGGGGGATCAGGGTGGATGGACTTCCTGAGGGTCAGGAATGGGGTTCAAGTTTGGACTGGGATCTAGGACAGCAGAGAAGCCAGGGAGGCCGGGGAGCCCCTCTTCCCTCACTCATTCATTTCCCTGCTCTGCCATCAGGACCTTCCCCACGTCCTGTCCTTCCAACCCTAGCCTGTTTTAGGGTCCATCTGCTGCATGCCTTGCACACATTATGAATCTCTGAGGCCGGGCTGCACAGAACCTGGTTCCCTGGCCTCTCCAGTTTCCATGGTGGCCTGGAGGTCCTCAAGGGTGCTGTCCAGGGTCTGCTCTGCATGTGGCCCCTTTCCTGTGTCTTTTCACTCTGGGTCACAGCTTCCTCACAGGAAATAGATATCACTTCCCTATTCCCACCTACAGGAGAAAAGCTCCCACCCTCTCCCATTCCCAGGACCCCTTCCTCTAATCTTACACCCCACCCTTGCCCCAAGATGTCCCATTAGGCCCCTCTCCCCATCTGGATAAACTTAGCTACTCACTTCCGCTTTCAGAGCCTTCTTAGACTTACCCCTCCTCCACACCCACCTATCTTGTGACTAGACTTGGACCTTTGACTTGGTCCTAGTCACAATTAATTAAACAGTTAATCACCCAAGTACTTATTAACACATCCCAGTTTGATGATCATTCTGGGGAGGAGACACTACAGTGCCCTGTCCAGGGCTGGCACAACGTAAACACTCTAAATATTTGATGACCCTGGTGATGAATATGACATCACCTCCCTCAGTCAAGATCAAATGGATGGGCATCCAGCTCCCCGCATTTCCCAGGCAGCTTCCCTCTCCTGCCTGGGACAAGAACTAAACTTGGGGAAGGACTTATAACAACTACTGTTCATTAAGGCAAAATTCACAATAATGGTATCCAAGGCTCATTGTGAAGATTTGCTGAGATTTTGGGTCTTAAAATGGTCTCAGCAGGTCCTGCAGGCAGCAGGAATGTTACAAAGTGACCTCAGTTCTGCCTTCCCCACAGGGCTTGGCTGTGGGGGCCATTCTTGTTTATACTTCCTTCCTCCAGCCCCTCTTGATGTGCGACCTCGGCTGAGTCACACTCCCTCTCTGGACCAATCTCATCTAGTGCTTTGAATCCTCACCTTAGGTGCTTGGGGAGACGGGAGCAATGCACAAAAGTGAAAATGATGTCACCTGCCTAGAGCACCTGGGGTATTTGTCAGGTTTGAATGGAGCATTGTGAGGGAAGGGTGCTTCACCAGGAGAAAATCCACACTTCTTCCCCTTTGAGGGGATGTGGCCTCCATTTCTTCATTTGTAAGTGGCACAGTTGAAAGCGTTGTCCATACAAATAGACAGGATGTGCTCTGCACAGAGACTGACCATTGCGGGAGTTCCTAGGTCACAGTTCCTCGCTGATTAAAAGGCAGAGTTCATGTCTGTCCCTGGGGTCAGCCAGGGCTAGAAGGTCCCAGGTCTGCAGATCCTTTGCTATGCAAGGAAGCAGAGGCCATGTGGACTGGCCCAGAGATAAAAGGATGTGGGACCAAAACCCAGGGAGAAGTCTGAGGCCACCCTGACATCCACAAACCTCCCCCAAAAGGATTTCCTCCTGTGGCCACCCCTGGTGGACAACTCCCAGGAGGACCAGAAAAATTTGCATTCTCAAGCCAAGGTCCACCTCCCTGTGGGCACAGAGCCTGTCTTCTCCCTGTGCCCTGGGATAGACCTTTGGGACTTGGAGAGCCTCCAGGTCCCTCCCTCCCCCAGAGGGAAGAAGGAAGCAGAGATTCCCTCCATCTGTGCAGGATCCCACACTCCATCCACTGCAGTGGACTCTCCTTCTGCAGAGTGATGACCCTTACCTTGCTTACAG
Seq C2 exon
GTCCCCCCCACGGAGCAGGGCATGAGCAAATTAACTGAGCTGGTGGCCAAATACTCCCAAGGATTTAGGATCTGGATGGGTCCCATCACCCCCATCATCGTTTTCTGCCACCCTGACTTGATCCGGATCGTCGCCAATGCTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000025748:ENSBTAT00000036366:2
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=0.000
Domain overlap (PFAM):
C1:
PF0006717=p450=PU(3.0=21.2)
A:
NA
C2:
PF0006717=p450=FE(10.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCAGCCTCCACTCTGACTGC
R:
AAGTCAGGGTGGCAGAAAACG
Band lengths:
346-2244
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]