BtaINT0015710 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014420 | AGER
Description
Bos taurus advanced glycosylation end product-specific receptor (AGER), mRNA. [Source:RefSeq mRNA;Acc:NM_173982]
Coordinates
chr23:27011430-27011903:+
Coord C1 exon
chr23:27011430-27011559
Coord A exon
chr23:27011560-27011681
Coord C2 exon
chr23:27011682-27011903
Length
122 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
TCCCCAATCCTCCTCCCCAGGAA
3' ss Score
9.73
Exon sequences
Seq C1 exon
GCTCTGTGGAAGGGCCGGGGCTGGAAACCCTAGCCCTGACCCTGGGGATCCTGGGAGGCCTGGGGACAGTCGCCCTGCTCATTGGGGTCATCGTGTGGCATCGAAGGCGGCAACGCAAAGGACAGGAGAG
Seq A exon
GTGAGTGGAGGAAGCCAGACACCTCAGACTGAGAACTTCCAGGCAGGAAGCAGAGGTGTGGGGTAAGAAATGATGGCGTGCTAGAAACCATGTGCAGAATTCTCCCCAATCCTCCTCCCCAG
Seq C2 exon
GAAGGTCCCGGAAAACCAGGAGGAGGAAGAGGAGGAGAGAGCGGAACTGAACCAGCCAGAGGAGCCCGAGGCGGCAGAGAGCAGCACAGGAGGGCCTTGAGGAGCCCACGGCCAGACCCGATCCATCAGCCCCTTTTCTTTTCCCACACTCTGTTCTGGCCCCAGGCCAGTTCTCCTCTGTATAATCTCCAGCCCACGTCTCCCAAACTTTCTTCCACAACC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014420:ENSBTAT00000065259:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.357 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF138951=Ig_2=PD(2.0=9.1)
A:
NA
C2:
NO
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:
CTCATTGGGGTCATCGTGTGG
R:
GGAGACGTGGGCTGGAGATTA
Band lengths:
256-378
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]