BtaINT0052805 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015238 | DSC3
Description
Bos taurus desmocollin 3 (DSC3), mRNA. [Source:RefSeq mRNA;Acc:NM_001178103]
Coordinates
chr24:26447717-26448151:+
Coord C1 exon
chr24:26447717-26447759
Coord A exon
chr24:26447760-26447841
Coord C2 exon
chr24:26447842-26448151
Length
82 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAT
5' ss Score
8.88
3' ss Seq
TTTTTTTGTTTCTTTTACAGAAA
3' ss Score
12.04
Exon sequences
Seq C1 exon
GAATCCATTAGAGGACACACTGGTTAAAAATTAAACATAAAAG
Seq A exon
GTAAATAAAAATAAATTTTATGTTTATCGGTTTCAGTGTGTTTGAAACAATATTACAATCCCTTTTTTTGTTTCTTTTACAG
Seq C2 exon
AAATTGCATCTGTGTAATCAGGACGAAGAGCACATGCCATCACAAGATTACGTCCTTACGTACAACTATGAAGGAAGAGGGTCTCCAGCCGGTTCTGTGGGTTGCTGCAGTGAAAAGCAGGAAGAAGACGGCCTTGACTTTTTAAATAATTTGGAAGCCAAATTTGCTGCCTTAGCAGAAACATGCACAAAGAGATAATGTTACAGTGCTACAATTAGATACGTCTTTGTCAGACATCATCTTTCTAAAAGAGATATTGTAAAATTCAATTTATTTCTATATATCTAGCAATATATAGATATTATGAATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015238:ENSBTAT00000048309:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.200
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0104912=Cadherin_C=PD(51.2=97.0)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCATTAGAGGACACACTGGT
R:
GTCAAGGCCGTCTTCTTCCTG
Band lengths:
178-260
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]