BtaINT0150613 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000575 | TNC
Description
tenascin C [Source:HGNC Symbol;Acc:HGNC:5318]
Coordinates
chr8:105988315-105989673:-
Coord C1 exon
chr8:105989551-105989673
Coord A exon
chr8:105988459-105989550
Coord C2 exon
chr8:105988315-105988458
Length
1092 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGG
5' ss Score
7.81
3' ss Seq
CTGCTTTTCCTGTGTTCCAGGTG
3' ss Score
12.24
Exon sequences
Seq C1 exon
CCATGGGCTCCCCGAAGGAAATCATTTTCTCAGACATCACTGAAAACGCAGCCAGTGTCAGCTGGATGGCACCCACTACCCAGGTGGAGAGCTTCCGGGTCACCTATGTGCCCATTGCAGGAG
Seq A exon
GTAGGGCGCTTGGTGGGGAGAGGGAAGGGATCTGGAGTGTTTGGGTGGAATTGTGACTCAGACAATTCCATCCTCCTCTTCATATTTGAGACCATCTGAATAGACTTCATTTGTAAAGTGCTATGAGATCCTTGAAAGAAACTATACCTTGAGGAATCATGTTAAAAAGATCATTTCCAGTCTCATAATTCTAAAATTCTATGAGCAATAGATCCCCAATAATGTTTTCACACAAGGACAAAAGACTCTAAACCCATTGACCTTTTTTGTTTGGCAAAACTGATCTTTGCCTCTTGGTCCCCAAATCTGTCTGTCTCAGCAAAGGATGGGAAGCTGTGACTTTGCAGAGTTGAAAGTTCTAGTTCAGGCACATGGGCCATAATAGAGACCACAAGACCACGGGGCGGGGGTAGGGGGAGGAAGCATATTCAAATCTATCTAAAGACATTCTGGGAGGTAGTGAGCTCCCTATTAGTGGAAGTGTACACAAAGATGATAGTTGATAAGTATATGCAAAGTGTATACAAAGATGATTATCTCTTCAGAGACACGCTGCAGCATCTCTGTAGGGAGTTCGGTCAACTGATACACAAGCTCCTCAAAAGCCCCCAGATTCTAAAAAACAAAAATTTTGGACTTTTTAATAGATATAAGAGTACAAATTAGACCATGATCATCTTCTTCAATCGTAGAATATCTGCTAGTAAGAGATAAGTCTATATATAGTTAAGCGAATACAATGGATTAAATATATCAGATATACATTACACAGTGAGCTTCCCGTATCCTTTGTGGGAAGAAATAGATAAATAAAATTTATACAGCATGCCAGCTCTCTACTGAATGGAAACTTGCCATTTGTAGCACATTGTGACCTCATAATTTTTCCTCCCCTGGCTTAGTTTTTGGCCTCTGCATGGATGGAAAAAAACATTATACAAAGAGTAAAACCTCTTCTCTTATGCTAGAGGGTAGGAGCAAATGAGAAGAAGTGAAGAAAATGCTGGATAAATGCAGTGTCACTGCCAAACCGGTTACGCCCACTCTTGGGACAGGTGTGCTTAAGTCCCTCCTGCTTTTCCTGTGTTCCAG
Seq C2 exon
GTGCGCCCTCAGCGGTGACTGTGGATGGGACCAAGACCCAGACCAGGCTGCTGAGACTCTTACCTGGAGCAGATTACCTGGTCAGCGTCATCGCCCTGAAGGGCTTTGAGGAAAGCGAGCCTGTCTCGGGGACGCTCACCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000575:ENSBTAT00000000752:18
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=0.163
Domain overlap (PFAM):
C1:
PF0004116=fn3=PU(48.8=92.9)
A:
NA
C2:
PF0004116=fn3=PD(50.0=81.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGAAGGAAATCATTTTCTCAGACA
R:
CTGTGGTGAGCGTCCCCG
Band lengths:
255-1347
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]