BtaINT0052938 @ bosTau6
Intron Retention
Gene
ENSBTAG00000040126 | DSG4
Description
desmoglein 4 [Source:HGNC Symbol;Acc:HGNC:21307]
Coordinates
chr24:26044514-26046278:-
Coord C1 exon
chr24:26045982-26046278
Coord A exon
chr24:26044657-26045981
Coord C2 exon
chr24:26044514-26044656
Length
1325 bp
Sequences
Splice sites
5' ss Seq
TTCGTAAGT
5' ss Score
9.77
3' ss Seq
CTTTCCACTTTCCTGGGCAGTGG
3' ss Score
8.31
Exon sequences
Seq C1 exon
CTACCTCTGCAATCCTGAAAGCTGAGCAGACTTTATATTCCGCATACTACGAAATCCCGATCCTAGTAAAGGACAGTTTTAACAGAGCATGCGAATTGCCGCAGATCATAGAGTTAAGGGCCTGTGACTGTGACATCAACCACGTGTGCTTGTACTCGGGTATCACAGACGTCAGCACCGGGGATGGGAGCTCTGTCACCAGTGTGTCTGTCACTGACGACCAAACTGAGGCTTCAAATGTTGGTATGGGATCAACAGGGATTGGCATGATCACGATGGGCGTCTTACTGCTGCTTC
Seq A exon
GTAAGTACTGGATTAAATCCCTCTTTTCAGCAGTTCTTCAAAATAAGAATGTAATCAGGTTCACTGGAATGGCCATTTCTTTTTGGTACCTATGGCAATGTTTGTGGAAATCTGGAAATAAGCAATGGGATTGATATGGGCATGTTACTTGTTCAATAACGGTAAGTAAGAATATTCACTGGAAGGACAAATGCTGAAGCTGAAACTCCAATACTCTGGCCACCTGACGTGAAGAGCCAACTCATTGGAAAAGACCCTGATACTGGGAAAGACTGAGGGTAGAAGGAGAAGGGGACGACAGAGAATGAGATGGTTGGATGGCATCACCAACTCAGTGGACATGAGTTTGAGCAAACTCTGGGATATAGTGAAGGACAGGGAAGCCTCATGTGCTGCAGTCCATGGGGTCCCAAAGAGTTGGACATGACTGAGTGACTGAACAACAACAACAACAACAAAAAAAGTCCAGGGTTAGTGAGGGTCAAAAAGATGGGAAATATGCAAGTCCCTAAGTACAGTATTTTTGCTGTTGTTCAGTCGCTCAGTCGTGTCTGCTTTATAGCAGAGCTAAAGTAATCCCATCATGACAATTTCAGCAGAGTCCTTTAAGAGCAGAAAAGCAGAAGTAATTAAGTCTAAATAGGAAAGTTGGGGAAGTCCTGATGGAGAAAGTGACTTTGAGCTGAAGATCTTCTTAGAAGGAGCATGGTGTGTGGGGAAATCCAGAAAAGCAGTCTAGGACAGAGGAAAAGCACAGACATAAACACACATGTAAAATGTGCACACATGTACACAGGGAACTAGGAAACATAAAACTGGATTTGAATCCTGGATCTGCCACCAGTTTGGAGTCTTAGATTAGCAGGAAGAAAGAACCTTATTTGCCTAATCTGTCATTAAAGTTTACCTGATCTTAAGTGACTAGTGGATTTGTATTTATAAACACGGATACATATCCTCAATCCTTAATGTTACTCGATCAGTCATGTCCGACTCTTTGCAACCCCATGGACTGCAGCCTACGAGGCTCCTCTGTCAATGGGATTTCCCAGGCAAGAATACTGGAGTGAGTTGCTATTTCCTTCTCCCGGGGATCTTCCCCACCCAGGAATGGAACTTGGGTCTCCCATGCTGCAGGGATATTCTTTACCATCTGAGCCACCAGGGAAGCCCCACTCAATACTTCAGGGGAAATTAATGCATTACATTTGTATTTTTCCCTCTAGTTCTGAATATCATGCCACATTTTCCCAAAAGTGATGCATTTGATGACTTCCTAAATTGAGCAATATGTGTTAACTCTTCCTTTCCACTTTCCTGGGCAG
Seq C2 exon
TGGCACCGCTCTTGCTGCTCTTGTGCTGCTGCTGCAAACGAAAACAGCCAGAAGGGCTGGGGACGAGTTTTGCTCCTGTGCCTGAGGGGGGAGAAGGAGTGGTGCAATCCTGGAGAATAGAAGGGGCCCATCCCGAGGACAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000040126:ENSBTAT00000048414:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.100 A=NA C2=0.292
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF134361=Gly-zipper_OmpA=PU(7.9=14.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGCATACTACGAAATCCCGA
R:
CTCAGGCACAGGAGCAAAACT
Band lengths:
344-1669
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]