BtaINT0150608 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000575 | TNC
Description
tenascin C [Source:HGNC Symbol;Acc:HGNC:5318]
Coordinates
chr8:106011128-106012260:-
Coord C1 exon
chr8:106011988-106012260
Coord A exon
chr8:106011401-106011987
Coord C2 exon
chr8:106011128-106011400
Length
587 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTC
5' ss Score
7.04
3' ss Seq
AACTCTGTCTCCTTATGCAGAGG
3' ss Score
8.32
Exon sequences
Seq C1 exon
GAGACACTCCCCACTTGGGAGAGGTCACGGTGTCCGAGGTGGGCTGGGAGGCCCTCAAACTCAACTGGACGGCTCCAGAAGGGGTCTACGAGCAGTTTCTCATTCAGGTGCAGGAGCCTGGCAAGGAGGAGGCAGCCCAGAACCTCACTGTCCCGGGAGGGCTGAGGTCCGTGGACCTGCCTGGGCTCAAGGCAGCCACTCACTATAGCATCACCATCCGTGGGGTCACTCGGGACTTCAGCACAGCCCCTCACTCTGTTGAAGCCTTAACAG
Seq A exon
GTACTCTAGACTGCTTCACTAACTTGCTTCCTCCCACTTAACAGGGATCCATGCTCTTCCCTCATCTACACTGGGCTCCGCTCCTGCCCCAGCGGGGAGTGCCATGATTCACCCAGAGGTCCTGTCCCTTGTTTGGCCAGGTCCTAGTCCTAGCATGGGAGCCAATTCCGTGGAAAGCTCCATGTTCTCTTCTCTTGCATAAATTAAGAGGTGACTTTTCTTTCAAAGCAAGTTTCAGCCGTATTATCTAAGAAGTTGGAAAGCACACTTGGCGAATGGGGGAAAAAAAATTGATCTGAGCTCATTTTAAGAACGCACCAAAGAACTCCCTGAAGCCCCATCTGTATGTCAAGAATGGAAGTTGTGAACAATTCTGAGAACTGTCTATGAAACACAAAGGCTGTCTAGAAATGCCCTGGCTTCAGTGCCAATAGCTAGAGTGTGCTCGACACCTGCTGTGAATCACACATCTGTGATCAATACCAACCAGACAACTCTCCCGACCTCAGCCACAGTGCCATCTCACCTGAATCCCAAAATGCCATTGCCTTTTTTTAGTAACTTGGCAACTCTGTCTCCTTATGCAG
Seq C2 exon
AGGAGGTTCCAGGTCTGGGGAACCTCACAGTGACCAGGGTTAGCTGGGATGCCCTCAGACTGCACTGGACCAGCCCCGATGGGATCTATGAACGGTTTGTCATTAAGATCCGGGAGACTGACCAGCCCCAAGAAGTTCACAGTCTCACGGTTCCTGGCAGCCAGCACTCCGTGGAGATTCCAGGCCTCAAGGCTGGTACCTCTTACACAATCACCCTGCGTGGCGAGGTCAGGGACCACAGCACTCAACCCCTTGCTGTGGAGGTCATCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000575:ENSBTAT00000000752:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.255 A=NA C2=0.163
Domain overlap (PFAM):
C1:
PF0004116=fn3=WD(100=88.0)
A:
NA
C2:
PF0004116=fn3=WD(100=85.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGCAGCCACTCACTATAGCA
R:
GTGATGACCTCCACAGCAAGG
Band lengths:
355-942
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]