BtaINT0037440 @ bosTau6
Intron Retention
Gene
ENSBTAG00000048122 | CFD
Description
Bos taurus complement factor D (adipsin) (CFD), mRNA. [Source:RefSeq mRNA;Acc:NM_001034255]
Coordinates
chr7:45031012-45031402:+
Coord C1 exon
chr7:45031012-45031168
Coord A exon
chr7:45031169-45031257
Coord C2 exon
chr7:45031258-45031402
Length
89 bp
Sequences
Splice sites
5' ss Seq
CGTGTGAGT
5' ss Score
7.42
3' ss Seq
TGCGTCCACCCCACTCCCAGGGC
3' ss Score
7.58
Exon sequences
Seq C1 exon
CGGCACAGCCCCGTGGCCGGATCCTGCGTGGCCAGGAGGCTCCATCCCACTCCCGGCCCTACATGGCATCCGTGCAGGTGAATGGCAAGCACGTGTGCGGAGGCTTCCTGATAGCAGAGCAGTGGGTGATGAGCGCAGCGCACTGCCTGGAGGACGT
Seq A exon
GTGAGTGGCCCGGGGCAAAGAACGGGGCCAGGCGGGGCGGGGCGGAGCGGAGGGGACGTGGTTCTGATGTGCGTCCACCCCACTCCCAG
Seq C2 exon
GGCCGATGGGAAGGTGCAGGTCCTCCTGGGCGCGCACTCCCTGTCGCAGCCGGAGCCCTCCAAGCGCCTGTACGACGTGCTCCGCGTAGTGCCCCACCCGGGCAGCCGGACAGAGACCATAGACCACGACCTACTCCTGCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000048122:ENSBTAT00000063284:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.132 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PU(20.2=84.9)
A:
NA
C2:
PF0008921=Trypsin=FE(21.5=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:
AGGCTTCCTGATAGCAGAGCA
R:
TCTATGGTCTCTGTCCGGCTG
Band lengths:
180-269
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]