BtaINT0004139 @ bosTau6
Intron Retention
Description
NA
Coordinates
chr24:49964147-49966170:-
Coord C1 exon
chr24:49965996-49966170
Coord A exon
chr24:49964228-49965995
Coord C2 exon
chr24:49964147-49964227
Length
1768 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGG
5' ss Score
10.88
3' ss Seq
TTTTGTTTTTATTCCAACAGATT
3' ss Score
10.32
Exon sequences
Seq C1 exon
GTACAACATTAGTCAGCTGGAGGAATGGCTTCGGGGAAGAAACCTGCACCAGAGCGGAGCTGTTGAGACCATGGAACCCCTGATTCAGGCTGCCCAGCTCCTGCAGTTAAAGAAGAAAAGCCCCGAGGATGCTGAGGCCATCTGCTCCCTGTGCACCGCCCTCAGCACCCAGCAG
Seq A exon
GTACGGTCACTGTCAGCCAAAGGGACTCAGGGCCAGGCCAGCTTCCGTTCCAAGTCAAAGGTTGTTTTCAAAGCACTCTGGGCCTTTTTCTGCCCTGGTGATACAGTCCTGAAAGTTCAGTCTATTGGTTGTTCCTGCATGAACCAAAGATACTTTGGTCTGCCAGTAACCCTCTGGTCTTTCTTATTTACTTAGAAAGATCAGGTAGTCAAACCCACAAAGCATCAAGCTTAAGCACAAAGGTTTTTAAACACTTAAGAGAGAGTTCTGGAATGTCTCTCACCACAAAATTTAAATTTCTTTCAGAAATTGGGAGTAGCATCTGTCTTTTGGCGTTAAATTGTTTCCTTTACAACTATAATTCCATTACATTTGTATTTTCACTTAGACTTCATATGTGTTATTTTATTTTATTTTTTTATATTTTTTTATTTAGCTGCACCAGACCTTAGTTTCAGCATGCAGGATCTTCAATTTTTTAAGTGGTGACACGAGGGATCTTTAGTTGTGGCGTTCCAACTCCTATTTGCAGCATGTGGGAAGTACGAGTTTCCTGACCAAGACTAGAACCCAGGCTCCCTGCATTGGGAGTGTAGAGTCTTAGTCACTGGACCACCAGGAGAGTCCCTACATTATTTTAAATAAAGTCAGTAAGCATCTGACTTTAAATTTTCTTTCCTTTTCCCCCTAGAAGTTGCATTTATACTGGGTCTCAGTTGCAGAGATAGTTTGTTGTTGCCATTCAGTCACTAAGTCACGTCCGACTCTTTGTGACCATATGGACTGCAGCACACCAGGCTCCTCTGTCCTCTACTGTCTCCCAGAGTTTGCTCAAGTTCATGTCCATTGACTAGGTGATGCTATCTAACTATTTTATCCTCTACCACCCCCTCTTCTTTTGCCTTCAAGAAGTACTACATCTGTCAAAAGATAAATCCTGTCACATAGGTGACCTTGCCCTCCATCATGAATGTGCCTGTTTAGAAATGGGCCCATCACAGGGTGGGGGTGCAAAATGAGACCAGCATGAAGAAATCGGGATTTTCCATATTAAATCATGCACATTCTCTCTGCCCAGCACCTAAAGAACAACAGAATCCAAATTCACTATTGCAAGTAAACATACATTTCCTTACCACCTCCATTAGATACTCAGAGATGAATACCAAGCTCTTAAAAAAGCTGCTTCCTTCTATACGTGTTTACTGAAAGTTTTGAAACTTAAAATTTTGCTTTCATAAGTTTATTCCTAGACTGTACCTGGTACCGCTCTGCCACTGGGCAGGCCACTTCCCCCACACAAAGAAGTACCTTCTGTTTAGATAGGAGAAAAACCTGCTCTTTAGTAAGTGATTTTGGGGGGTGGTGAGAGATAAGGAAAGTGCTGTTAAGACCTTTGTTATAAAAGGTAAGATACCCAGAACTCTTTTAATGAAACCTTTAAGGGGCTAGTAGATAAGGCGCTGAAGACTTTAGGCCAACAGTTTCCTAAAATCCTCATTAATTCATAAGTCACAGAGCATGGGGGAGGGTTGGGCAGATATATAGGAGAAAGGAGTCGGTAAGAGAGCTCAGATCTCCCAGGCAGAGCTTTGGGACCCTAATTTACTAAACGTGGATGCCTCAATGTCAGTCCAGCTGCACCTGAATTGTGGGTCTTGCCCACAGAGAAGTGTTCTCTGGTGCCAATATCATAAATTCTTTAAGGTTCAAAAGTGATTTTAGGTTCATTTAGCTCTGTGCTAAACTTTTGTTTTTATTCCAACAG
Seq C2 exon
ATTGTCAAAATTTTGAACCTTTATACCCCTCTGAATGAATTTGAAGAACGGGTGACAGTGGCTTTTATACGAACAATCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019455:ENSBTAT00000061584:38
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:
PF0184314=DIL=FE(54.7=100)
A:
NA
C2:
PF0184314=DIL=PD(12.3=48.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAACATTAGTCAGCTGGAGGA
R:
CTGGATTGTTCGTATAAAAGCCACTG
Band lengths:
254-2022
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]