BtaINT0079101 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017685 | JUP
Description
Bos taurus junction plakoglobin (JUP), mRNA. [Source:RefSeq mRNA;Acc:NM_001004024]
Coordinates
chr19:42602486-42603791:-
Coord C1 exon
chr19:42603626-42603791
Coord A exon
chr19:42603285-42603625
Coord C2 exon
chr19:42602486-42603284
Length
341 bp
Sequences
Splice sites
5' ss Seq
CGAGTATGG
5' ss Score
3.35
3' ss Seq
GCTCCCCCCCACCCCCCCAGGTG
3' ss Score
9.7
Exon sequences
Seq C1 exon
ACATGGACGCCACCTACCGCCCCATGTACTCGAGCGACGTGCCCATGGACCCACTGGAGATGCACATGGACATGGATGGAGACTATCCCATCGACACCTACAGTGACGGCCTCAGGCCCCCCTACGCAACTGCAGACCACATGCTGGCCTAGCTGCCCGGACCCGA
Seq A exon
GTATGGCGCCCCCTCCCCCTGCTTTGCAGCTCTCTCTCCCCCTGTGGGCTGCTGAGACTTGGGCTTCCCTTCCCTTAGGACCTCCTTCTCACGGGAGGCCTCTCAGGCTTTCCCTGAAACCCTGGCTCCTTTAGGGGGGAGCAAGCGTGGGGCCTCTGGGTGCTAAGCTGTCCCAGGGAAGGCATGCCTTGCCTGCCTTGTTCTGTTATCTTTGCTCTGGGCAGCGAGTTCCTGCCCCTTCTGTGGATGGTGGGCGGGTGACGCAGGAGTGGCATGAGCTCCCAGGGGCCACGGACCTGGCCTAACCCTGTATCTTTGTCTGCTCCCCCCCACCCCCCCAG
Seq C2 exon
GTGCGGTTCCCCATCTGAGAGGTTCTCCGTGCAGGTGATGGGGCCAGATAGCCAAGTGCCTGAACCCGGGCAGCAGGGCTGCAACTTCCTGCGGAGCCCCGTGCCTCCAGAGGTTCTCTGTGGGGTCTTTCTTGGGATGGTGATCTGCTCCTGCTTTTCTATTCTGGGCCGTGGGTCCAGGGCCCGATAACCTGTTCCCACCCCTGAGGCCCTGGCACTAAAACTTTAGACTCGAGGCACCCACCTTGTCCCCCCCCGAAGCTCCCCTCTCCTCCCAGGCTGCCCATCTCCAGTGGCTTGGGCCCCACAGCTCTGGCTTCTGATTTGGTCACTGAACTCCAACTGTGCTGAGCCCCCGGGATCTTCAGGCCCCAGGTTCAAGGCCAAAAGGCCCAGAATCCAAAGCTTGTCTTGGAAAGTTCAGGGATCCTCTGGGAAGATGGGGTGGAGACACGGAGAGATTGTTCCCACTTCAGGACACTGCCTGCTTCCTCCCCGGGACACTCAGTTGGCTTTGGCCCCTCCTAGGGGAGCTTGGGGACAGCGCCCTGGAACCTTCCTCCCGCCCACACAACTACCCTAGCTGACCCCTGAGAAGTGCTCTTGGCTGACCCCTCTGGTGTGCGGTGAGGGGCTTTCTCTTCCTCTTCCTGTTTCAAACTCCCCACCACCACCTCCTGCACACGGGTGTTGGGGGCTGGGGGAGGTCCCAGCAGAGTTTTATTATGATCGCTTTATGTTTTTGGTTATTGGTTTTTTTTGTATAGACCAAAGCAAAGAAAATAAAACTAACACACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017685:ENSBTAT00000023522:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.140 A=NA C2=NA
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACCCACTGGAGATGCACATG
R:
GTTTTAGTGCCAGGGCCTCAG
Band lengths:
343-684
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development