BtaINT0151117 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011706 | TNR
Description
tenascin R [Source:HGNC Symbol;Acc:HGNC:11953]
Coordinates
chr16:58050356-58051932:-
Coord C1 exon
chr16:58051663-58051932
Coord A exon
chr16:58050476-58051662
Coord C2 exon
chr16:58050356-58050475
Length
1187 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGG
5' ss Score
6.92
3' ss Seq
GACCACCTGGATCCTTGTAGGAA
3' ss Score
5.56
Exon sequences
Seq C1 exon
GCTTCCGCCCCATCTCCCATTTGCACTTTTCTCACGTGACCTCCTCCAGCGTGAACATCACCTGGAGTGACCCATCCCCTCCGGCAGACAGACTCATTCTCAACTACAGCCCACGGGATGAAGAGGAAGAAATGATGGAGGTCTCCCTGGATGCCACCAAGAGGCATGCTGTCCTGATGGGCCTGCAGCCAGCCACCGAGTACATTGTGAATCTGGTGGCAGTCCATGGCACAGTGAGCTCTGAGCCCATCGTGGGCTCCATCACCACAG
Seq A exon
GTGGGGCTGGAGGACTTGGCAGCAGGTGATAATGGGGATTCCCATGGTAACCTTTATGAAATTTACAAAGAGAAACACCCAAGGAGTAGGGGACCACCTTGTTTATCCAGAGAGGGTCTATGAGTTGTTCTTAAACAGTCACCTCTTCCAGGGCTGCACAAAATGTATAAGATAGGAAGCTTCCACTTAGAAGATAAGATGGGCTTGATGTCTTAAGGAGGCCAGGGCTTTAATGCATTGATCCAGAGGTCCTCCTTCTATCAACTTAGAAGAAAACTCTGGAGAGAGCTAGTGTCCAAGAGGAGACCCTTCTACAGTGAGGAGACATCTGTTCCTCTTCTGGAGAGCTATCTCTTGACTGCCCAGTCAGTTCAATTTGTGAATGATGTTTCCCCAGAATCATATGAGACTGGCATGCAACCATATAGGGACCTGGTACTCTGAGAATCAGGTTGATCTGCATGTTGTCTGAAAAACACAGCTACTCTGAGATGCACTGAATCACTTGCATCTCATCTTTCTTACATACAGTCACAAATATGAGTGTGATGTGGGTGAGGACGTCTGTTTGGGTGATTTCTTATATACTTACAAGAAATGAAGAAGTGGATTAAACACTCAGCTGGTTTTGGCCCTGTAACCTGCCAGTACTAAAAAAAAAAAAAAAAAATAGAGCATACAGTATAAATAAAAAAACAGTTTAGGAAAGTGGATTTGTTCTGGACTTGTACTCTGAAATCCCTGTACAGTCAATAGCAATTTTTCCAAATTGACCAAAGGTGGTTGATACAAAAAAGAGAGAGAGAGAGAGAGAGTTGGGTTTGTTCAAAAGAAGCTGCCCCAAAGAAAATGACCATTACTCCTAGTTCAAAACAAAACAACAAACTTGAAGGATATTTTCCCGTTGGCCTTCAGATAGGTAAGAGTCGCTACAGAGGCATAGACCTTGACAGCTTGATTTCATGTTGTTAAAATACTCTCTAGGTGCATGGCTCTGGCCATATCTATGAGGTTTCAAGTGAAACTTCAGCCTGATCATGGTTTTAAGGTTTCCTTAGTATAAAGTGTAAGGTCTTGATTGCCTCTGGAACACCAATAGCTCTTGGTCCACATAAAACCAAAAATAGGAAATTGTTTCTCATATTATGCTTTCTGTCTTTTCCCCACGACCACCTGGATCCTTGTAG
Seq C2 exon
GAATTGATCCTCCCAAAGACATCACAATTAGCAATGTGACCAAGGACTCAGTTATGGTCTCCTGGAGCCCTCCTGTTGCATCTTTTGATTACTACCGAGTATCCTATCGGCCAACACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011706:ENSBTAT00000015545:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.198 A=NA C2=0.073
Domain overlap (PFAM):
C1:
PF0004116=fn3=WD(100=89.0)
A:
NA
C2:
PF0004116=fn3=PU(47.5=92.7)
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:
CCCCATCTCCCATTTGCACTT
R:
AAAGATGCAACAGGAGGGCTC
Band lengths:
348-1535
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development