BtaINT0052773 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019876 | DSC1
Description
Bos taurus desmocollin 1 (DSC1), mRNA. [Source:RefSeq mRNA;Acc:NM_174044]
Coordinates
chr24:26317707-26318741:+
Coord C1 exon
chr24:26317707-26317949
Coord A exon
chr24:26317950-26318695
Coord C2 exon
chr24:26318696-26318741
Length
746 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGT
5' ss Score
9.82
3' ss Seq
TGTGCATTTTTTATATGTAGGAA
3' ss Score
8.38
Exon sequences
Seq C1 exon
GATGCAAATATTAGACTCCCCACACAGACATCCAACGTTTGTGACACAAGCATATCTGTTGGCACACTTGGTGGCCAGGGAGTCAAAACACAGCAAAGTTTTGAGATGGTCAAAGGCGGCTACACTTTGGATGCCAACAAAGGAGGTGGACATCAGACCCTGGAATCTGTTAAGGGAGTGACGGACACTGGCAGATACACGTACAGTGACTGGCACAACTTCACCCAACCTCGGCTTGGCGAA
Seq A exon
GTAAGTGCCGCTGTCTTCATGTTCATTTTACATGAAAGTTAAACTCTGTTTATAAATCAGGATTTCCCCAAAGTTTCAGTCCTTATACATCTGGAGCTCATCACCTTTTTCATGTTGAATTATCATAGATATATGAATATTAGATCCAAACCCAAAGAGGAAAATGACCGCGTAAAGTTCAATTTTTAAAATAAGGTTTCCAAAACTTGACCTAGGAGTGGCATATGTAGGCACTTCTCTACTTTTGTAAGTATAAAAAGACTCAGCAGCAGCAGCAGCAGCATAGCTTCTTTCCTAAAAATTGCCAGGAAAATCACCTAGAGTGAAATGTTACAGGGTACTACGTGGGTCACAAATTATAAATATTCTTAAGATTATGAAATCTTAATGATCGCCATCAACCAGACAGATCATTAAGCTTTTATTTTGGGTTTTAGTTCCCCGTTTTATGTTCAGATCAGGCAATGTACATTAATATTAGCCAGTTAAATATATTACTATAAGTATGTAATAATGTATAAACATAAGGGTCATAGCTTATATTTGTTTCCCCTAAATATGTAAAAAAGTTGTAGACACATTTCAATGATACAAATTTCATGTTTAAATGGGAAATCGTAAGCTAGTTGTGTGATGCATGTGGAGCTTCAGTTTTTATCAATGTGTTCAGTAGGAGCATTTATATATCTGCTATATTTTAAGAATGAATATAATACAGACCAATCATGTGCATTTTTTATATGTAG
Seq C2 exon
GAATCCATTAGAGGACACACTCTGGTTAAAAATTAAACAGTAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019876:ENSBTAT00000026483:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.144 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0104912=Cadherin_C=PU(45.5=67.9)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCAAATATTAGACTCCCCACACA
R:
TTTAATTTTTAACCAGAGTGTGTCCT
Band lengths:
278-1024
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]