BtaINT0052789 @ bosTau6
Intron Retention
Gene
ENSBTAG00000040584 | DSC2
Description
desmocollin 2 [Source:HGNC Symbol;Acc:HGNC:3036]
Coordinates
chr24:26375878-26377202:+
Coord C1 exon
chr24:26375878-26376168
Coord A exon
chr24:26376169-26376837
Coord C2 exon
chr24:26376838-26377202
Length
669 bp
Sequences
Splice sites
5' ss Seq
GAAGTGAGT
5' ss Score
7.97
3' ss Seq
GTGTTTTATCCTCTTGGCAGAAG
3' ss Score
8.12
Exon sequences
Seq C1 exon
TATTCCACAAATGATTTCACAACCCATGCTGTGGGTGGCTCCGCTCATGGAATTGGTGGCACCCTGGGATCCAGAGTGAAGAATGGAGGGCAGGAGACCATCGAGATGGTCAAAGGAGGGCACCAGACCATGGAGTCCTGCCAGGAAACCGGGCATCATCACACCCTGGAACGGTGTAAGGAAGGTGGACAGCACACTCTGGATTCCTGTAGGGGAGGACCAGTAGCAACCGACAACTGCAAATACACGTACTCCGAGTGGTATACTTACACTCAGCCCCGTCTTGGTGAA
Seq A exon
GTGAGTTTCCCATAAATCTGTTTTGCTTTCTTTTCAGCTTTCTAAATGATTATGAAATGATTATGATCTTGATTTTTCACCCAATTAATCTACTCATTAGAAATTTGATTTTCCTTAATTTTGGTTGAATTGCAATCAGAGGTTAAATGGGTATTGACTTTTCTTCCTATTTTGTTTGGTTGTTCATTCTTTCTGAAAGAATAAGATGATACTTAAATTCTTTTTCTCATGGCTTTGTGTTACCATTTCCCATCAGACAAATCAGGTCTTAGAGACCAACAGTGGAATCCGAGGCAACTCCAACCTGCAGTCACTCTGCCTATCTGGGAAAGCTTTGAGCCACATGCATTCGGGTTCACTTGTACGAATGCATTTCACATTAGCCATAATCTGGAAAGGGAAAACAATGATAACTTAAAACAAATGCTTGCATACTTGCTGCCACATGTGTGACTTTTAGAAACCTGCTATGTAGTGAATTAACTGATGGTGTGATTTATGATACAGACCAATCATGTGCATTTTTTATACGTAGGAATCCATTAGAGGACACACTCTGGTTAAAAATTAAACAATGAAAGGTAAATCAAAGCAATTATTTTTATGCTAGTAAGTCTTGGTGTTTAAAATAATAATAATAAAATATGTTGTGTTTTATCCTCTTGGCAG
Seq C2 exon
AAGGTCCAGCAGTGTGATCAGGATAACACCCATATGCAAGCTCAAGACTACGTCCTGACCTATAACTACGAAGGAAGAGGATCGGCAGCTGGATCTGTGGGCTGTTGCAGCGAACGACAAGAAGAAGATGGGCTTGAATTTTTGGATCATCTGGGACCCAAATTTAGGACACTTGCGGAAACATGCATGAAGAGATGAGTGCCTTCTAGATGGTCTACAAAAGCCAATGGGTTTATCGTCTTTTTTTGTTTTTATAAGCTAAGATTTTTTTTAAACATAGAAGATGCTATATTGGGGGCTTTTCCCCTTTATTTTGTTGGGATCTCTTTAGCCAAATGTGCATTCACCGAGGGATGCTGTAAATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000040584:ENSBTAT00000011306:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.392 A=NA C2=0.123
Domain overlap (PFAM):
C1:
PF0104912=Cadherin_C=PU(47.2=60.8)
A:
NA
C2:
PF0104912=Cadherin_C=PD(51.2=97.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTGAAGAATGGAGGGCAGGA
R:
TCTTCTTGTCGTTCGCTGCAA
Band lengths:
342-1011
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]