BtaINT0150611 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000575 | TNC
Description
tenascin C [Source:HGNC Symbol;Acc:HGNC:5318]
Coordinates
chr8:105995444-105997511:-
Coord C1 exon
chr8:105997239-105997511
Coord A exon
chr8:105995717-105997238
Coord C2 exon
chr8:105995444-105995716
Length
1522 bp
Sequences
Splice sites
5' ss Seq
CAGGTATTT
5' ss Score
7.51
3' ss Seq
ACCATTCTCTTCCCTTCTAGAAG
3' ss Score
10.55
Exon sequences
Seq C1 exon
AGGCCCTGCCCCTTCTGGAAAACCTAACCATTTCCGACATTAATCCCTACGGGTTCACAGTTTCCTGGATGGCATCGGAGAATGCCTTTGACAGCTTCCTAGTCACGGTGGTGGATTCTGGGAAGCTGCTGGACCCCCAGGAATTCACCCTTTCAGGAACCCAGAGGAAGCTGGAGCTCAGAGGCCTTATAACTGGCATTGGCTATGAGGTCATGGTCTCTGGCTTCACCCAAGGGCGCCAAACCAAGCCCTTGAGGGCTGAGATTATTACAG
Seq A exon
GTATTTTGGCTCAAGTGAGCCATTTTCTCCTCTTCCCAGTTCCCTCCATGTAATCCATCTATGAGACCGCCATGGTTTTAACACTCTTGTCCATGTTTCCTACTTAATCCATAGATGTGGCCTAGTCTTTGTGTCTCCACCCCCACCCCCAGCACTGTCTCTCGTCTCACGTCTCTAACGAGTGCTCCTTTCCTCCCACTCCAGAAACGAGAAGGTCGAAATGTCTCCACTAGGTGTCCCGAATCCTTTGACCGCATCTTGTCTGTAGCTCTTGTGTGTTACCCTCCTCTGTGTTCATCCGGCTGGTCCCCAGCTACGTTTCAGCCTTCTCAAGAGAAATATACCAAGGAGTATATTTCAAAAACTTATTTACTGCATTTGTCATCTCAAAGCCTCAACTGTGGTCTTGCCAAACTTGCCAGGTGGGCTTGTCATTGGAAAACCAACTGTGAACTTATACTGGTAAACACTAATATCATTGAGATTCTTCAACACAGACTAAATCCATCATTTTCAGCACACTCATAATTCCTAGAGAAATATAGCATGAACAACTTTAACAGTCAAAAATCTGTGTTTCCCAAAGTCTTTCTAGAGGGAACTAACTCCATATTCAGAGGTCCTACTTAATAAAGAAGTTCCATGTTCAAATAAATTTCTGAAACACTGAGTTACAGATCCTTGACCACAAAGCTCTAGAGAACATTGTAAAGTGCATGCTTCTCTCCAAGAGGGGCTTACCCAGGAAATTTTCCCACATTTATTTGACAATGAATGATGATCAAACAGGTACAGTTTGCTCTGAGTGTACTTTGGGAAACTCAGGTCTAAATCTACCTTGACACTGAGTTTTGTCTAGTTAAGCCAATCCAAGATCACAACTTTGGGTCTAAAGTATGTAGTACAAGAGGTTCCAAGTCTTGGTTCTACCATCTGAACACTTACTGAATGGTTAACAAAAAGCAAGCCAGTCAAGAGTAGGAGCCTCCTTTAGTATAGCAGCTCCAAGAAAAAGAGCATAACATTTATAATGTTTTAAAAGCCAAATGCTCAAGATCAAGGGAAATATAATCAGCCGTATCATCATGGGCAGCTCTACAGATCGTTAATGCTGGTTTATTTGTCTTTGCAAAAAGAAAAGAAGAAGGTCTCGCAGACATGGGCGTTCAGCCACTGGCAGACAGAGAGCAAATGTAAACAAGTTACTGGCTTTGAAATTGTTTAATAATGCAGGGAAGGGGTCTTTGCTGAGTCCAGATGTGGATTTACAGAATTGCTTTTAGACAAAACTCACACATGTAAGCACCCACTTGACTTGTACTGAATGTATCAACTCTCTTTCTCCTCTCCTCGACCTACTGGACATGTCCATGTTGAATCATTTTATTTTCGGTATCTCAGGACACTTCTCACTCTGAGAGCCGGGACACGGCTGCATATCAATACCCCCACCAGAGAGACTATGGCACAGGCTGCTGAGTGATCTTCTCTCTCCTCCTTCCACCATTCTCTTCCCTTCTAG
Seq C2 exon
AAGCCGAGCCGGAAGTTGACAACCTTCTGGTTTCAGATGCCACCCCAGATGGGTTCCGTCTGTCCTGGACAGCTGATGAAGGAGTCTTCGACAGTTTTGTTCTCAAAATCAGAGATACCAAAAAGCAGTCCGAGCCACTGGAGATAACCCTCCTTGCCCCCGAACGAACCAGGGACATTACAGGTCTCAGAGAGGCCACTGAATATGAAATTGAGCTCTATGGAATAAGCAGTGGAAGGCGATCCCAGCCAGTCACTGCCATAGCAACAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000575:ENSBTAT00000000752:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.058 A=NA C2=0.087
Domain overlap (PFAM):
C1:
PF0004116=fn3=WD(100=88.0)
A:
NA
C2:
PF0004116=fn3=WD(100=88.0)
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:
TCCTGGATGGCATCGGAGAAT
R:
TATCTCCAGTGGCTCGGACTG
Band lengths:
357-1879
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]