BtaINT0007019 @ bosTau6
Intron Retention
Description
Bos taurus complement component 4A (C4A), mRNA. [Source:RefSeq mRNA;Acc:NM_001166485]
Coordinates
chr23:27195260-27195635:-
Coord C1 exon
chr23:27195547-27195635
Coord A exon
chr23:27195343-27195546
Coord C2 exon
chr23:27195260-27195342
Length
204 bp
Sequences
Splice sites
5' ss Seq
AGAGTGAGC
5' ss Score
4.22
3' ss Seq
TCTCCCTTGTCTGTCCTCAGGCC
3' ss Score
12.33
Exon sequences
Seq C1 exon
AACTCTCAAGGCTTCCGCGTGCAGAAAAGGGAAGTGTTTGCTCCCTTCTCCATCTTCCAGGACAGCTTTTTGATTCCAGACATCTCAGA
Seq A exon
GTGAGCATTTCCTCCCAGGGACTGCTCCCACCGACAATTCTCTAATTCCCACTTCCCTGAGCTAGCCAACTACAGCACATGGTCCAGTTCTGAGCTCCCTCAGCCCCTGGATCACCCCATAATCTCTTCCTAGGGAGCTGGGTCACTGGCTGTCAGTGGGCCTCTTGCACGAGTGGGCTGAGTCTCTCCCTTGTCTGTCCTCAG
Seq C2 exon
GCCAGGAACATGGAAAATTTCAGCCCGATTCTCAGACAGCCTGGATTCCAATAGCAGCACCCAGTTTGAGGTGAAGAAATACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000037533:ENSBTAT00000009019:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0183514=A2M_N=FE(30.9=100)
A:
NA
C2:
PF0183514=A2M_N=PD(25.5=82.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
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:
AACTCTCAAGGCTTCCGCGT
R:
CGTATTTCTTCACCTCAAACTGGG
Band lengths:
172-376
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]