BtaINT0016185 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020554 | AIF1
Description
Bos taurus allograft inflammatory factor 1 (AIF1), mRNA. [Source:RefSeq mRNA;Acc:NM_173985]
Coordinates
chr23:27505098-27505457:-
Coord C1 exon
chr23:27505334-27505457
Coord A exon
chr23:27505160-27505333
Coord C2 exon
chr23:27505098-27505159
Length
174 bp
Sequences
Splice sites
5' ss Seq
AGGGTAGGG
5' ss Score
5.76
3' ss Seq
TAACCTTTGCGCTCCTTCAGGAG
3' ss Score
9.3
Exon sequences
Seq C1 exon
GGCAGGCCTCCAGGAAGCTGATGGGAGAGGAGAGCTGGCAGACAGAGAAGGCACCCAGTCTGTGTTGTTTCCTCCATCTCAACCAGCACCTGCTGAGCTATGAGCGAAACTAGGGATTTACAGG
Seq A exon
GTAGGGAAGGTGGAATAGGCAGGATTCTAAAATGGGAAAAAGGAGCTGGACAGTACTGGGCTCGGGGGCTGGGAAGCTGGCTTATGAAAGCAGAACTGTAATGGCTTCAGGCTGAGCTTGGGGGTGAGGAGAGGAAGGTGGGGTGAAGCTACATTAACCTTTGCGCTCCTTCAG
Seq C2 exon
GAGGAAAAGCCTTTGGGCTGCGGAAAGCCCAGCAGGAAGAGAGAATCAATGAAATCAACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020554:ENSBTAT00000027388:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.333 A=NA C2=0.571
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCAGGCCTCCAGGAAGC
R:
CTGGTTGATTTCATTGATTCTCTCT
Band lengths:
186-360
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]