BtaINT0015707 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014420 | AGER
Description
Bos taurus advanced glycosylation end product-specific receptor (AGER), mRNA. [Source:RefSeq mRNA;Acc:NM_173982]
Coordinates
chr23:27010580-27011036:+
Coord C1 exon
chr23:27010580-27010710
Coord A exon
chr23:27010711-27010894
Coord C2 exon
chr23:27010895-27011036
Length
184 bp
Sequences
Splice sites
5' ss Seq
GATGTGAGT
5' ss Score
7.77
3' ss Seq
ATCCCTCCTTCCCCCACCAGGGC
3' ss Score
11.1
Exon sequences
Seq C1 exon
ACGCTGTGCCACTGAAGGAAGTCCAGTTGGTGGTAGAGCCAGAAGGGGGAGCAGTAGCTCCTGGTGGTACTGTGACCTTGACCTGTGAAGCCCCCGCCCAGCCCCCACCTCAAATCCACTGGATCAAGGAT
Seq A exon
GTGAGTGACCTGAGAGGGGGCTGGCAGGTAGCAAGATACATAATTGGCAATTCGGAGGGCAGGGGGTTCATGGAGAGGCAGGCAAGGAGGTACAAGGGTATCTGGGGATGTGGAGGCGAGGACAGAAGTATGGGATGTGTGGACAGGGGGTTTAATAGTCTCCTATCCCTCCTTCCCCCACCAG
Seq C2 exon
GGCAGGCCCCTGCCCCTTCCCCCTGGCCCCATGCTGCTCCTCCCAGAGGTAGGGCCTGAGGACCAGGGAACCTACAGTTGTGTGGCCACCCATCCCAGCCATGGGCCCCAGGAGAGCCGTGCTGTCAGCGTCAGCATCATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014420:ENSBTAT00000065259:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.783 A=NA C2=0.896
Domain overlap (PFAM):
C1:
PF082057=C2-set_2=PD(2.4=6.7)
A:
NA
C2:
PF138951=Ig_2=PD(53.6=93.8)
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:
GGTAGAGCCAGAAGGGGGAG
R:
CGATGATGCTGACGCTGACAG
Band lengths:
242-426
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]