BtaINT0052931 @ bosTau6
Intron Retention
Gene
ENSBTAG00000039483 | DSG3
Description
Bos taurus desmoglein 3 (DSG3), mRNA. [Source:RefSeq mRNA;Acc:NM_001192685]
Coordinates
chr24:25994979-25996248:-
Coord C1 exon
chr24:25996082-25996248
Coord A exon
chr24:25995108-25996081
Coord C2 exon
chr24:25994979-25995107
Length
974 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAG
5' ss Score
8.27
3' ss Seq
CTTTTTTTCTCCAAATTTAGCAA
3' ss Score
7.48
Exon sequences
Seq C1 exon
ACTCATTGGTGATGATACTAAATGCCACAGATGCAGATGAACCGAACCACCTGAACTCTAAAATTGCCTTCAAAATCATCTCTCAGGAACCTGCAGGCACATCCATGTTCCTCCTAAGCAGACACACAGGGGAAGTCCGCACTTTGACCAATTCACTTGATCGAGAG
Seq A exon
GTAAAGCAAGGCTCTTGGGAGCATTCAGTAACTCAGGATTCAGTTGTAAGCAACCCAAGAGAGGTGACTCCCTTCTACCTAAGAAGGAAAGAGAGAAGGAAGAGGGGTTCTCTGTATTCAACTGACCCAACTGAGGGACGCTCCTCGCATCCTACTGTGATTTTGCTGGGGTGGGTTGTGTGTCTGAGACCTGCACAATCGATTGTACCTCAATAAATGAGTATCCCACATCCATGGAAGTTAAACTGAGGGAATAAGAGAAGGCATTGTATCCACGGACAGAGACTGAACTGGGGCTAATCCCTCATGTGATGGAGGAAAAGGAAACTTCCTAGGGAGAAATTCGTATCTGGAATAAAGCCTTCTCTGATGCTGTGCTTTTTCTCCTGACTTCTTTCCATTTTACTCCTGTTTCTAGAACACTAGAGAATCCCCAGGAACTACCTGATGGTGCAATGGTAGAGCTTCATGCTCTCTCTGCTGAGCAACCGGATTCAATCCTTGGTTAGGAAACTAAGGTCCCACAAACCACATGGAGCGGCCACAAGGGAAACAGAAAAAAGAATCCCCTTACTCTCTCTTCTCCATTGTTCTATCGACACATCTCCAACAACACACAAGACCCCATCAGACTCTGTATTACTTTTACACAAATGATTTTCCAAACAGACCAGTAAGGAAGCTCCATAAATGAGTTTCCCTCAGATAAACAGAGCACCATCCTTATTGTCCATTTCTGCACTTTCCTGCTCTAAGAAGCTCACAAAAGAGAAAACTTGTATCAGCCCCATAAAGACTTCCTCCTGTGCCCCACGTGCTTCGTCTATGGTGGACAATGAAAGTGCATGTGGTCCTTCTAGAGAACGAACCATGAGTTTAAATATTTTCACTTCCTTCCCATAGGAAGCAAGTAGTTGTCATTCATATCCCTGACACTAGAGATTAATCATTTTTCTTTTTTTCTCCAAATTTAG
Seq C2 exon
CAAGTTAGCAGCTATCGCCTGGTTGTGAGTGGTGCAGACAGAGATGGAGAAGGACTATCATCTCAGTGTGAATGTAGCATTAAAGTGAAAGATGTCAATGATAATTTCCCCACATTCAGAGAATCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000039483:ENSBTAT00000002538:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.018 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0002812=Cadherin=FE(56.7=100)
A:
NA
C2:
PF0002812=Cadherin=PD(29.9=67.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCATTGGTGATGATACTAAATGCCAC
R:
CTGTGATTCTCTGAATGTGGGGA
Band lengths:
294-1268
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]