BtaINT0151124 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011706 | TNR
Description
tenascin R [Source:HGNC Symbol;Acc:HGNC:11953]
Coordinates
chr16:58017925-58019591:-
Coord C1 exon
chr16:58019440-58019591
Coord A exon
chr16:58018022-58019439
Coord C2 exon
chr16:58017925-58018021
Length
1418 bp
Sequences
Splice sites
5' ss Seq
ATTGTAAGT
5' ss Score
8.54
3' ss Seq
GTCCCCCTCTCTCTTCACAGGTA
3' ss Score
13.77
Exon sequences
Seq C1 exon
GGGGCCGGGTCTTCCCTCATCCTCAAGACTGTGCCCAGCATTTGATGAACGGAGACACTCTGAGCGGGGTTTACACCATCTTCCTCAACGGAGAACTAAGCCAGAAGTTACAGGTGTACTGCGACATGACCACCGATGGGGGTGGTTGGATT
Seq A exon
GTAAGTATCTATGGCTGTTCTCCAGGCACGCCAGCGACCTTGGTGCCTCCATCCACCTGGCTCGGCACCCATCCATCCATACTTCACCATCCTTTGGCCATTTTTTCATCCACTCTCCCCACCCCTCCACCCTCACCCCACAGGTCCACTCTATAACTCTGCATCGTCCTCAGGGCCCTTGTTCAGCAGCCCTATCACAGGTTTGAACAGGCAGAGGAAGGAATAAGAATATGAGGCTGTAGTGGTCCAGCCAAGAAAGGGGGACCCAGGAAAATGGCTCCTTCTGGGGGGATAGTTCATGCAGGAGGGTGCCAGGAAAAGAGAGAAGTAGCTCAGAGAGGCCCAGGGGTCTTCCCTGCTGAAAACTGCATCTATGATAAGGAGTAGAGGAGGTGAGTCCCTCGCAGGAGGAGGGAAGTCTCTATGGGGAAGTGATCAGTATCTTTCTGTTGGAGAATCACATATGGCGGAGCAGTTAAGGTGCAGAAAGTGGATCGCCACCTCTATGTACAAAGGCCACCCCTGTCTCCATCCTCTCCTGGCCTTTCCGGTTCTTCCCCAATAGTCTTCAGGGAGCAGAAGTGGTAGGGAAAAGAGAGACTCCATTTCCTATCACGCTCCTCCCATGTCCAATAGGGCAGTACAGAGAGAAGAGAATGGGCAGCCTGGCGAATGGCCTCACACATCACTGCAGGCCACTATGCAGGTGGGGGAGTTCTGGCAGCCTGGCCCGAAAGCAGCCCAGCATTAGCTGAGTCAGTTGCAGATGGAAACCCTACCCCTTCACCCCACTTCCTCCTGAGGATCCCACTTCCAGCAGCAACACACCATGCTGGATTTTTCACAGTGCCAAATGGATAGTTGTTGAATGGAGTCAAACTCTTGGGAGATGTCTTCTTTTATGTTTCTGACATATATGTGCCTTCTTCTTAAAGCATAATCGGAAGTTGAAGTCGAGGCTGATGTATTGGAGGTTAAATGAAATTAGCACTTAAACAGCTCAGAAAGTGAATGATACACACTTGCTTTGCCTGAAACAAGATGATGACGTTACTGGCTGATCTGAAATGGGTCCCATTCTTTTGGTGAAAAATGCTTTCTGCTGCATGCCACGGTGTGAAAAGATGAATTTGAGAGCCTAGCCTATTTCCCTTGACTATCGGGGGTTTGATATGTATCCTGAATCCTTTCTACATGGCAGGGGTGCAAATTAGTGTCAACATCACACCCCAGCCTATTCATCAAGGGCCCCTGGGCTTCAGAGAAGGGCTCCGAGCGTCTCCTGCCATGACCGCTGTGCACATACCGAGCTCTACTGCAGTGGTGCTTACCTGAGTGTCTCTGTCACTGCAGATATAAAACTCTGGTGCAGTAGTTTGACTCATTTTTTTTTCATTTGTCCCCCTCTCTCTTCACAG
Seq C2 exon
GTATTCCAGAGGCGGCAGAATGGCCAAACTGATTTTTTCCGGAAATGGGCTGAGTACCGTGTTGGCTTTGGGAACCTGGAGGATGAGTTTTGGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011706:ENSBTAT00000015545:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.020 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0014713=Fibrinogen_C=PU(21.0=86.3)
A:
NA
C2:
PF0014713=Fibrinogen_C=FE(15.2=100)
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:
GGTCTTCCCTCATCCTCAAGACT
R:
GCCAAAACTCATCCTCCAGGT
Band lengths:
239-1657
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development