BtaINT0151134 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011706 | TNR
Description
tenascin R [Source:HGNC Symbol;Acc:HGNC:11953]
Coordinates
chr16:58052772-58054165:-
Coord C1 exon
chr16:58054076-58054165
Coord A exon
chr16:58053036-58054075
Coord C2 exon
chr16:58052772-58053035
Length
1040 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
CTGGTTATTTTGATCCACAGAAC
3' ss Score
7.93
Exon sequences
Seq C1 exon
ATCTGGTGCCTGGCACTGAGTATGGAATTGGAATATCTGCCATCATGAACTCACAGCAAAGCGTACCAGCCACCATGAATGCCAGGACTG
Seq A exon
GTGAGTAGGAAGACTGGTGTGGAAAGAGACCAGGACACTCTGACCTGAGGGCCATCGAGGACTGGTCAGATGGCAATTCCCCCTAGCGAACAGGTCCCTGGGTGAGGATTATTGGCCTAGGAACACCGTCTACCTGTAGCTCTTTGATTCCCTGTGCCTACCCTCTGGCATCTGACATGCAGGATGGAGTCCCACCCTCTCTGCACACTTGGCACCCAATGGTCTGAAGGGCTGCCCACTGCTATGCAGAGCAGAGGTGTAAAACCCCATAAAAGCCAGTGTTGTAGCAAGTCATATTTCCTTCTAAATCATCTCACAGCAGGCAGAATGTGATACTTCTCACCCCATAGGACAGAACCTTCAGAAAGGCCACAGGCTGAAGGTCTAGACTTGGAAACAATCCATTTGAGCTTGGAGAAAGGAGAAGTCCACTGAGATTCTTGCTATTCTGGATCCAACAATTTTGGTTTCAAATCCCAGGCAAATTCCAAAGTCACTTTAGTAACTGGTAGCAGCCTGGGCTGGGCTGGTCTGAACCAATCCCTGTCCCAAGGTTGTCGAGCATAGACAACCTCTCTAGAGAACCTCAAGACATGGGTCCCCAGGAGTCCTCAGATCTTATTGCCTACACACCTGTGGCCAGGTCGGTCAGAATGGCAGCAGGAACAGAGGTAGTCAGGGTTGCCAGGAGCAGCATATCTGTACTTGCTTGTGACACCTGTTTTGCCCTGGTTGGCTTACTGAGAATGGCTGGGAGAAAATGGAGAGCTTAAAAATCAGCAGCCAGCTTTGTCCCACAGGTGAGTGTCTTGAGTTACTTATGCCTTCCTGCAGATTATTCATCTATATGCCAAGCCCCTAGACATCTTTCAAAGGGAAGGTGCTTAACAAAGTGTGAGATTAGTGTCAGCAATGACAAGCCAATCTTCATGGTCAGCAGACCTGCTGATAGCTTAGAAATCCACTGGGGGCCTAATTCTAATAAATACTGGCCCTCGTGTGGAACTTACGTAAAATAGGCTGGTTATTTTGATCCACAG
Seq C2 exon
AACTCGACAGTCCTCGAGACCTCATGGTGACAGCCTCCTCGGAAACCTCCATCTCCCTCATCTGGACCAAGGCCAGCGGCCCCATTGACCACTACCGAATTACCTTTACCCCGTCCTCTGGGATCGCCTCTGAAGTCACTGTGCCCAAGGACAGGACCTCGTATACACTGACAGATCTAGAGCCCGGGGCAGAGTACATCATTTCAATCACAGCTGAGAGGGGCCGGCAGCAGAGCCTGGAGTCCACTGTGGATGCCTTCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011706:ENSBTAT00000015545:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.323 A=NA C2=0.225
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(26.5=71.0)
A:
NA
C2:
PF0004116=fn3=WD(100=89.9)
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:
TGCCTGGCACTGAGTATGGAA
R:
CTGTGAAGGCATCCACAGTGG
Band lengths:
348-1388
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development