BtaINT0000075 @ bosTau6
Intron Retention
Description
Bos taurus cytochrome P450, family 2, subfamily J (LOC521656), mRNA. [Source:RefSeq mRNA;Acc:NM_001038551]
Coordinates
chr3:86507391-86508071:+
Coord C1 exon
chr3:86507391-86507532
Coord A exon
chr3:86507533-86507883
Coord C2 exon
chr3:86507884-86508071
Length
351 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
AGCCTCCTCTTATTTCCCAGAAA
3' ss Score
7.92
Exon sequences
Seq C1 exon
CACAAAGGCAATGCTACTTCGAGTTTCGATGACGAAAACCTCATCTGCAGCACCCTGGACCTCTTCTTGGCTGGAACAGAGACAACTTCAACCACCCTGCGCTGGGGATTGCTTTTCATGGCCCTGAACCCCGAAATCCAAG
Seq A exon
GTGAGCACATCAGTGTGTGTGCCTGGACCAAGTCAGAGTGCTTCTGTAAATCAGTTCTTATAAATCTTAATGTTCCTAAAAGGAAAGTTGATTTATCCTCACTAGTCAGGCGAAACGAAGCCTCAACAAGCTTCAGGAACTCTCAGCAGAAATGTTGTGGAGCAAGAGTTTGGCACCAGATTTGTATCACACCAGGGCCCACTTCCCACTCACATACCTCCCTGGGGAGCAGTCTGGAGAGCTCACTATAGCTTTAGCCATTTTGATCCTAGTTATTCCATTCCTTAGCTTAACCAGGCTTCAGGAAAATTATGGAATATTAGAATAATACAGCCTCCTCTTATTTCCCAG
Seq C2 exon
AAAAAGTCCAAGCTGAGATCGACAGGGTGCTCGGGCAATCACAGAAGGTGAGCACGGCCTCTCGAGAGTCCATGCCCTACACCAACGCTGTCATCCACGAGGTGCAGAGAATGGGGAACATCGTCCCCATGAACGTGCCCAGGGAGGTGACAGTGGACACCGTCCTGGCTGGATACCACCTGGTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000258:ENSBTAT00000013230:6
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=0.032
Domain overlap (PFAM):
C1:
PF0006717=p450=FE(10.3=100)
A:
NA
C2:
PF0006717=p450=FE(13.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAAAGGCAATGCTACTTCGAGT
R:
TCCAGCCAGGACGGTGTC
Band lengths:
314-665
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]