BtaINT0150629 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000575 | TNC
Description
tenascin C [Source:HGNC Symbol;Acc:HGNC:5318]
Coordinates
chr8:106023108-106023626:-
Coord C1 exon
chr8:106023441-106023626
Coord A exon
chr8:106023198-106023440
Coord C2 exon
chr8:106023108-106023197
Length
243 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
ACCTGCTCATTCTCTCCTAGGGC
3' ss Score
10.49
Exon sequences
Seq C1 exon
GCCTGGATGCGCCCAGGAATCTCCGCCGCATCTCCCAGACAGACAACAGCATCACCCTGGAGTGGAGGAACGTCAAGGCAGCCGCCGACAGTTACAGAATTAAGTATGCACCCATCTCTGGAGGCGACCACGCGGAAGTAGAAGTCCCCAGGAGCCAACAGACCACAACCAGAACCACGCTCACAG
Seq A exon
GTGAGCTCCATACCCCTACCCGCCCGGACCCGGGGGCATATCCCCACCTTGCAGCCCTCCAGAGAGAGAAAAATAGCCAGTTCCCCATTGTCCCTCTCCCTCGGGCGTCAGTGAGTCAGGCCGTGGAACAGGCCAGCCGTTGAGAAACCGTAGCCTTCAGGGCCTAGCTCAGGGGCCTTTTTATGGTCCTCTGAAAGTTTGTCCAGTTTTGTACTGAATCTCAACCTGCTCATTCTCTCCTAG
Seq C2 exon
GGCTGAGGCCAGGAACTGAATATGGGATTGGGGTGTCTGCTGTGAAGGGAGACAAGGAGAGTGACCCAGCCACCATCAATGCGGCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000575:ENSBTAT00000000752:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.540 A=NA C2=0.839
Domain overlap (PFAM):
C1:
PF0004116=fn3=PU(71.4=95.2)
A:
NA
C2:
PF0004116=fn3=PD(27.4=74.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGATGCGCCCAGGAATCTC
R:
CTGTGGCCGCATTGATGGT
Band lengths:
273-516
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]