BtaINT0015702 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014420 | AGER
Description
Bos taurus advanced glycosylation end product-specific receptor (AGER), mRNA. [Source:RefSeq mRNA;Acc:NM_173982]
Coordinates
chr23:27008831-27009506:+
Coord C1 exon
chr23:27008831-27009181
Coord A exon
chr23:27009182-27009313
Coord C2 exon
chr23:27009314-27009506
Length
132 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
CCCCTCTCCTCTGCCCCCAGAAC
3' ss Score
11.66
Exon sequences
Seq C1 exon
AGCCTGGGAAGGAAGCAGGATGGCAGCAGGGGCAGTGGTCGGAGCCTGGATGCTAGTCCTCAGTCTGTGGGGTGAGCCACTCCCCTGCCACAACCCTCCCCGCAGAAGGCACCCCGCCCTGTCCCCAAATCTCCCCCCCAGCTTTGCAGGAACCTGGGTGCCGCTTTCCAGTCTCCCTCATCCTCCCTGTTCTAGTCTTGCTAGCTGCCATCTCCCTGCCCTCCATCATGGTGCTGTCTCCCAGGGACAGTCATGGGGGACCAAAACATCACAGCCCGGATCGGGAAGCCAGTGGTGCTGAACTGCAAGGGAGCCCCCAAGAAACCACCCCAGCAGCTGGAATGGAAACTG
Seq A exon
GTAAGTGGGGCTCCTGTCTCTCCACTTCTGGGGACGCCAGTGAGATTCGCGCCCCCTCCTGCCCACCTCCCTTCTTCATCAGTCCTTTCCCAAAGGGCCTGCACTGTTGAGGCCCCTCTCCTCTGCCCCCAG
Seq C2 exon
AACACAGGCCGGACAGAAGCTTGGAAAGTCCTGTCTCCCCAGGGAGACCCCTGGGATAGCGTGGCTCGGGTCCTCCCCAACGGCTCCCTCCTCCTGCCGGCTGTTGGGATCCAGGATGAGGGGACTTTCCGGTGCCGGGCAACGAGCCGGAGCGGAAAGGAGACCAAGTCTAACTACCGAGTCCGAGTCTATC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014420:ENSBTAT00000065259:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.381 A=NA C2=0.249
Domain overlap (PFAM):
C1:
PF138951=Ig_2=PU(32.6=93.9)
A:
NA
C2:
PF138951=Ig_2=PD(62.6=95.4)
Main Inclusion Isoform:
NA
Other Inclusion 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:
CTGTCTCCCAGGGACAGTCAT
R:
GGAAAGTCCCCTCATCCTGGA
Band lengths:
248-380
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]