BtaINT0052919 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021923 | DSG2
Description
Bos taurus desmoglein 2 (DSG2), mRNA. [Source:RefSeq mRNA;Acc:NM_001192172]
Coordinates
chr24:25924978-25925645:-
Coord C1 exon
chr24:25925503-25925645
Coord A exon
chr24:25925206-25925502
Coord C2 exon
chr24:25924978-25925205
Length
297 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
TTTTTTTTCCTATTTTTAAGAAT
3' ss Score
9.01
Exon sequences
Seq C1 exon
ATATGCCAAATTTGAAGATATAGACAATTGGATCTCTGTGAATTCTGCCACCTCTGAAATTAAACTTGTGAAGATTCCTGATTATGAATCCAGATATGTCCAAAATGGTACATACACTGCAAAGATTGTGGCTATAACAGAAG
Seq A exon
GTAAGTTATTAAAGAAACATCTTTTCTTGGTTATATGTATTTAGATTTTATTTTCCAACCACGGAGACCTTTGTTTTGGCCTTATAGAAAGGTCACATGGGTAAACCTTCACATTTCTACATATTTAGTGGATTAAAAGACATTACTTGATCTGAGTATGAAAGCACATCTAAGATAAGAAGTGTCCTAATTTGGATACCAGTTCTCCTTATGAAATTGACTAGAGAATTCAAACCATGTCCATTTTGAGCAGTATGACCAGAATGTACTTTTTTTTTTTTTTTTCCTATTTTTAAG
Seq C2 exon
AATATCCTAGAAAAACCATCACTGGCACTATTGTTATCAATGTTGAAGATGTCAATGACAATTGTCCCACACTGGTCGAACCTGTGCAGACTGTCTGTGACTATGTGCCGTTCGTGAACGTGACCGCTCAGGACCTGGACGGACCCCAAAACAGCTGGCCTTTCAGTTTCTCCATCATTGATAAACCAGCTGGAATGGCAGAAAGATGGAAAATAGTACGCCGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021923:ENSBTAT00000029228:9
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=FE(50.5=100),PF079068=Toxin_15=FE(62.3=100)
A:
NA
C2:
PF0002812=Cadherin=PD(15.8=19.5),PF079068=Toxin_15=PD(16.9=16.9)
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:
TGTGAATTCTGCCACCTCTGA
R:
TGCCATTCCAGCTGGTTTATCA
Band lengths:
307-604
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]