BtaINT0052904 @ bosTau6
Intron Retention
Gene
ENSBTAG00000013831 | DSG1
Description
Bos taurus desmoglein 1 (DSG1), mRNA. [Source:RefSeq mRNA;Acc:NM_174045]
Coordinates
chr24:26111422-26112343:-
Coord C1 exon
chr24:26112209-26112343
Coord A exon
chr24:26111608-26112208
Coord C2 exon
chr24:26111422-26111607
Length
601 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGT
5' ss Score
9.49
3' ss Seq
ATTTTTACTTCTTGTTTCAGCAA
3' ss Score
8.4
Exon sequences
Seq C1 exon
CAATATGGCCAGTACTCTCTAGCTGTAAGAGGCTCAGACCGAGATGGTGGGGCAGATGGTATGTCAGCAGAGTGTGAATGCAACATTAAAATCCTCGATGTCAATGATAACATTCCATACATGGAACTGCCAACA
Seq A exon
GTAAGTAATAGTCCTTGAATTTTTTTTAAGTATTTATTTATTTGGCTGCACCTGGTCTTAGTTGCAGCATGTGGGATCTAATTCCCTGACCATGGATTGAACCTGGGCCCCCTGCATTAGAAGCTTTCAGTCTTAGCCACTGGACCAACAGGGAAGTCCGAGAGTTTGGGGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGGCACCATACAGCATGTGGGATCTTAGCTCCCCAGCCAAGGATCAAACCCCTACCCTCTGCACTGGAAGACGGAGTCTCAGCCACTGGACCACCAGCAAAGTCCAGTCCTTGAATTTAATAACTTTAGTTTCCTTACCTTCTAAAATTTGTTCTAACAATTCTTTTTACAGATGTAGTTATTTTTAAGTCATAAGACAAAGGTACACACATATTTCATCTCGTGTTTGTTTATATAATACATATGAAAAAAACCCTTATTTGAACAATGAAAAGTCAGACCACAAACATGGATCCCCTTTCTATATCATGAATAACTATAAACATTCTATATAAAACTAGTATAATTCTCTTTCTCACATAGTTTGTGCTAAAATATTTTTACTTCTTGTTTCAG
Seq C2 exon
CAATCCATAAGCATTGAAGAAAATTCTCTGAATTCAAATTTGCTCCAGATTAGAGTAATAGATTTGGATGAGGAGTTCTCAGCTAACTGGATGGCAGTCATTTTCTTCATCTCCGGAAATGAGGGGAATTGGTTTGAAATAGAAATGAATGAAAGAACAAATGTGGGAACTTTAAAGGTTGTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013831:ENSBTAT00000018382:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.044 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0002812=Cadherin=PD(31.3=68.9)
A:
NA
C2:
PF0002812=Cadherin=PU(58.7=98.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TATGGCCAGTACTCTCTAGCTGT
R:
CTTAACAACCTTTAAAGTTCCCACA
Band lengths:
318-919
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]