BtaINT0052947 @ bosTau6
Intron Retention
Gene
ENSBTAG00000040126 | DSG4
Description
desmoglein 4 [Source:HGNC Symbol;Acc:HGNC:21307]
Coordinates
chr24:26058573-26060053:-
Coord C1 exon
chr24:26059919-26060053
Coord A exon
chr24:26058759-26059918
Coord C2 exon
chr24:26058573-26058758
Length
1160 bp
Sequences
Splice sites
5' ss Seq
TCGGTAAGT
5' ss Score
11.78
3' ss Seq
ATTGATCTATGCCATTTCAGTAC
3' ss Score
4.54
Exon sequences
Seq C1 exon
CAACACAGCATGTATAACCTCCTCGTGAGGGGCTCAGATCGGGATGGAGCTACGGATGGACTGTCTTCAGAGTGTGACTGCAGAATCAAGGTTTTAGACGTCAATGATAATTTCCCCACTTTGGAGAAAACTTCG
Seq A exon
GTAAGTTGTTACTCTTCTACTCCTTTTTTCCCCCATAAGTGTCAATAATAGATCTACTTTCCTGCTGGTTTGTGAACCTGGTTCTATGACATGTATGCTGCTGTGCTGTGCTATGTCATGTCCAACTCTTGGCAACCCCATGGACTGTAGCCCACCAGGCTCCTCTGTCCACTGGGGTTATGACATGTATAGATGTACTCAACTTTCTCGCTGTATAAACTTTGGAACTTCTTACATATAATCACATACAAGATCTGCTAGAGAAGGAATAGGCTACCCACTCCAGTATTCTTGGGGGCTTCCCTGGTGATAGCTGGTAAAGAATCTGCCTGCAATGCGAGAGACCTGGCTTTGATCCTTGGGTTGGGAAGATCCCCTGGAGAAGGTAATGGCTACTCACTCCAGTATTCTGGCCTGGAGAATTCCATGGACTGTATAGTCCATGGGATCGCAAAGAGTTGGACACGACTGAGCGACTTTCACTTTCACTGAATAGTAAATTTGCCTGTTTCACTATTCTGTGTAAATCTCTTCTTTGACAGCATATCTCCTCCATACTCTCTACTCACAGAATTGTAGAAATTTATGAACATAACTCTGGGAATCATGTAACAATGTTGATGTATTTTTCTATGCCTGATGATTTGCTGAATCAATTCCAGAAAAGTCCCAAACATTCCAACTTCCATATTCATAAAGAGCCACACAATTGAAAACAGTAGGGCTGAACCTGGCTCACTGCCTATTTTGGTTAAAATTAAAAAGTTTTATTAGGCCACAACTGTCCTGTGTTGTCCGTGGCTGCTTAGATCTTAACAACAGCAGAGATGAGTAACTGACACAAACTCCCTGGTCCACAAAGTCTAATATAATTACCATCTTGCCCTTTACATAAAAGGAAGAACTAACTTAAGAAAAATTTAAAATAAGCAAGAAAAATAAAACGAAGTTCCTGTTTGACCTTGATTGCACCTGCAGCACAAGAAAACCAGTTTTATTATCCTGTAATCATTTTATTCTTATATTGCTGATAGGACAGATGGCTGACACAAAAATCATTGGCATAATCTGTTGTTAGTATTTCAAATAAGAATTATGATAAGTCAATCTCTTTCCTTTTGAAAATTTATTGATTATAAAATTGATCTATGCCATTTCAG
Seq C2 exon
TACTCAGCGAGTATTGAAGAGAACTGTTTAAGTTCGGAACTGATCCGATTTCAAGCAATTGATCTCGACGAAGAAGGCACTGACAACTGGTTGGCAAAATATTTAATTCTCTCTGGAAATGATGGGAATTGGTTTGATATTCAAACAGACCCACAAACCAACGAAGGCATTTTGAAAGTCATCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000040126:ENSBTAT00000048414:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 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
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACACAGCATGTATAACCTCCTCG
R:
TTGATGACTTTCAAAATGCCTTCGT
Band lengths:
318-1478
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]