BtaINT0052910 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021923 | DSG2
Description
Bos taurus desmoglein 2 (DSG2), mRNA. [Source:RefSeq mRNA;Acc:NM_001192172]
Coordinates
chr24:25918061-25919561:-
Coord C1 exon
chr24:25919440-25919561
Coord A exon
chr24:25918400-25919439
Coord C2 exon
chr24:25918061-25918399
Length
1040 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGA
5' ss Score
6.8
3' ss Seq
GATGGTATGTGCTCTCACAGGTG
3' ss Score
8.07
Exon sequences
Seq C1 exon
TTATACCACTTCTGCTGCTGGTGTGCCATTGTGGAAAGGGCGCCAAAGGCTTTACCCCCATCCCGGGTACCATAGAGATGCTGCATCCATGGAACAACGAGGGGGCGCCACCTGAAGACAAG
Seq A exon
GTCAGATAATCCAGTGTCAGTGGAGCGTGTCCTCTTTCCTGCTTTAAAGGAGTCTCTGACATCATAGGTCATGAGCGCAAACTAGTTCCTACAGATTTCATTCACATGCCTTCGTTAAATACAGCCTACTTTGTATCTGTTGCCAGGGCAGCGTTGAGGTGGTTTTGCTCTACTGCCACAGGTCCTGAGTTACAGAGAACATAGACAGAGGGTCAGGTAGTGATGCCGGGAATGTAGAACAAAGGCTAAAGTGAGCAAGAGTGTGTAGGGGTTCAGGTAGGAAGATTTGTCCCAATATTTAAACGGGCAGTCTTTCATAACCAGGTGCTTCTCCATTTCCAGTCCACACAATACATAAGGTCCGCAGAGGTACACCCACAGCCCCCGTGACAGTTGTAAAATGTTGCAAAATCCCCTTCCCTACCTACTTACTGGCCGTCCCAGGGAGCACTAGTGGTAAAGAACCTGCCTGCCAGTGCAGGAGACAGAAGAGATGTAGGTTCAATCCTAGGATGGGGAAGATCCCCTGGAGAGAGAAATGGCAACCCACTCCAGGATTCTGGCCTGGAGAGTCCCATGGACAGAGGAACCTGGCAGGCTACAGTCCATGGGGTTGCAAAGAGTCGGACATGACTGAAGTGACTTAGCACACAAGAGAATCAGAAGATAGAGCAGAGATCTTCAGAAGACTCAAAGAGGAGTCATTCAGACAAAGTTTTTACTAATTTGCCTTGGGCAAATATCTTACTTCCTTCATATGCTTGGGCTTCCCTGGTGGCTCAAATGGTAAAGAATCCACCTGCAATGCAGGAGACCCAGGTTTGATCCCTGGTCAGGAAGATCCCCTGGAGAAGGAAATGACAACCCACTCCAGTATTCTGGCCTGGAGAATTCCATGGACAGAGGAACCTGGTGGGCTACAGTCTGTGGGGTCACAAAGAGTCAGACACGACTGAGGTGACTAACACTCTCGCCAGCTCACTTAGCTCAGACGGTCGGCGTACTGACCGTCCCTGACTCGATGGTATGTGCTCTCACAG
Seq C2 exon
GTGGTGCTGCCTCTTCTGGGGGCGGATGTCAGAGATGGGGCCGCGGTAGGTGCTGGGGCAGGCGGAGGTGTGACGGCCAAGGAAGCCATCGTGAAAGGAAGCAGCTCTGCCTCCTTTAGCAAAGGGCAGCAGGAGATGTCCGAGGCGGAAGGCCGCTGGGAAGAATACAGAAGCCTCGTCTCAGGCGGGGCCACCCAGGTTACTGGGACGACCGGGGCCATGGTGACCTCGGACACCTTCAGGACCACGAGAGCCACGGGGGCAGCCAGAGAAGTGGCCGGAGCTCGAGCAGGCGCAGTGGCGGTGAACGAGGAGTTCCTGAGAAGTTACTTCACTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021923:ENSBTAT00000029228:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.220 A=NA C2=0.235
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0104912=Cadherin_C=PU(27.5=22.1)
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:
TGGTGTGCCATTGTGGAAAGG
R:
TCTCGTGGTCCTGAAGGTGTC
Band lengths:
356-1396
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]