BtaINT0052909 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021923 | DSG2
Description
Bos taurus desmoglein 2 (DSG2), mRNA. [Source:RefSeq mRNA;Acc:NM_001192172]
Coordinates
chr24:25919440-25921544:-
Coord C1 exon
chr24:25921317-25921544
Coord A exon
chr24:25919562-25921316
Coord C2 exon
chr24:25919440-25919561
Length
1755 bp
Sequences
Splice sites
5' ss Seq
TACGTAAGT
5' ss Score
9.27
3' ss Seq
TGGATTTTGTTTCTGTGCAGTTA
3' ss Score
7.63
Exon sequences
Seq C1 exon
ATAACAACGTGCTACTACAACAAACCAAAAGACAGCATGGGACAAGTGAAATTCACTTCCAGATCGCAGATAGTCAAGGCTTCAGCTGTCCTGAAGAGCAGATCCTTAGGCTCACAGTTTGCAATTGTGTGGAAGGCAGCGGCTGTGTGAATATGTGGGCTGACTCCTACGTTGGCTTGGGGCCTGCAGCAATTGCACTCATAATTCTTGCCCTTCTGCTCTTGCTAC
Seq A exon
GTAAGTATTTTAAAAGCTGTACGTTCCCTTGCGGGGGCCTTCCCAGGTGGCTCAGTGGTCAAGAATCTGCCTGCCAAGCATGAGAGTCGGGTACAATTCCTGAGTCAGAAGGATCCCCTGGAGGAAGAATGACAACCCACTCCACTATTCTTGCCTGGAAAATCCCATGGACAGAGGAGCCTGGTGGGCTACAGTCCATGGGTCCGTGAAGAGCTGGACATAACTGAGCACTTCCTCTTTTAGTAACTTCTAGTGTTTTTAGGATTTTGTTACTATGGTACTCATTGATTTCTTTAGTTTTTCTGTAATCACACTAGAATGCTATTGAGGGTGAGAAGGGAAGCAAGAATTGATCATTGCTCAATTCACCAAAAGTTATCAGAGCTCTCTTCAGAATTTTGTTTTATAAAAATGTATCATTTCCTGATTTCGGGAACCAAGAGTATTAGACATACGTTTCAACCTTGTGGGTGTCCCCACTTTGTTAAGCTCTGTGAGGGAGGTGGGGTATCTGTTCTTCCACACACAGTGCCTTGTGCGTGGAAAGCTCTCAGAAAAGACTTGTTGCGTGGTACAAGGTTATTTTACAAACTCATCTGATTCCCAGCAGTTCTTGTTTTTCGCACACTTGACTTGTCAGAGCTCCACCTCCCAACAGGCTCCGCTTGGCTTGCCCCTTCCCCTGCACCAACAGGAGCCAGACCCTCTGAGCACTTACATGTTTCCCAGCAGTGACAACCAGCCCGTCCCTTCCTGCCTGCCCTCCAGTGCCTTCCAGTGACTTTGGGTTTCCTTTCATGGAAGAACAGAAGACTGCAACCTGGGGTCACATGGAACCACTCCACTTGCCCACTGCCCATGGGCAGACCACCACCTGCAAGGCAGCCTCCGCTGTTTCTCTGTTAGAAGAGGGTGCGTCCAAGCCATTAGTAGGTGTGCAGCTGAATACACAGCACTCAACAGTTTGCAGTGCACTTTTACATCATCATCTGCATTTAGTGGGTTAAAATACTGACCTGATGATAATGACTTGTCTCAGCTGACCAACCTGGGATTCCTTGCACTACCGTCTCACCTCAGATTTCCCAGGGTTTAATGGGGGTGCTTAGCACATGGCAGACACTTGATAAACATTTGCTATCTTCAGTCCTTTTATTACACACAGTAACCATAGTCGGTGAAAGTATTAGTCACTCAGTTGTGTCTGACTGACTGCAACACCATGGACTGTAGCCCGCCAGGCTCCTCTGTCCATAGAATTCTCCAGGCAAGAATACTGGAGTGGGTAGCCATTCCCTTCTCCAGGGGATCTTCCTCACCCAGGAATCGAACTTGGGTCTCCTGCAATGCAGGCAGATTCTTTACCTTTTAGGCCACTGTGGAAGCATATGCTAAAAATTAAAGTGGTTTTTAAAAAAATTAAGCTATTAAATTGATTTTGATGATTTGGATAGTGTCAAATCCAGTCTTGATGTCCCACTGAGTGACCACAGACAGTGACCACAGTCTTTGTGATGGACAGGAACTCTGAATCTGTAAGACTCCCTCATCCTGCTTTTAGGCTTTGGTATGACTCACCCAAAACAGACTTGGTGAGTTTGGATCAGGGGAAGAAAAGAAAAACAGAAAAATAGGGCTATAAGTAAGTGAAGACTGAACTCTAGAAAGTGATATGCAAATTCCAAAACTATGCAAGATAAATTCAAAAATCGGTCAAGACTAACCTTCTCTGTGCTGGATTTTGTTTCTGTGCAG
Seq C2 exon
TTATACCACTTCTGCTGCTGGTGTGCCATTGTGGAAAGGGCGCCAAAGGCTTTACCCCCATCCCGGGTACCATAGAGATGCTGCATCCATGGAACAACGAGGGGGCGCCACCTGAAGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021923:ENSBTAT00000029228:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.032 A=NA C2=0.220
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
ACAACGTGCTACTACAACAAACCA
R:
CTTGTCTTCAGGTGGCGCC
Band lengths:
347-2102
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]