BtaINT0150620 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000575 | TNC
Description
tenascin C [Source:HGNC Symbol;Acc:HGNC:5318]
Coordinates
chr8:105975262-105976506:-
Coord C1 exon
chr8:105976355-105976506
Coord A exon
chr8:105975359-105976354
Coord C2 exon
chr8:105975262-105975358
Length
996 bp
Sequences
Splice sites
5' ss Seq
ATTGTGAGT
5' ss Score
7.35
3' ss Seq
TTCATTGCTTGTGTTTATAGGTG
3' ss Score
9.23
Exon sequences
Seq C1 exon
GTGGAGTCCTGTACCGATTCCCCAGGGACTGCTCCCAGGCAATGCTGAATGGAGACACAACCTCTGGCGTCTACACCATTTATCTGAACAACGACAAGACCCAGAAGCAGGAAGTCTTCTGTGACATGACCTCTGACGGGGGTGGATGGATT
Seq A exon
GTGAGTATCATGGAGACAGGCTCCAGGCCTCTCAGACAGGAGGGGTGGGGGCAGAGGAGAGGCGGGGAGGTCCCCTCCATGCCCTCTGACCTTAATGTGCCTGAGGGTTTGCAAGACAGTGCCTGTCACATGGAAACACTCAGGAATTCTCTCTTAAAGTAATGGGAAAGAAGCTGAGGATAAAGAGCAGTTCCTCATTTTCTCGTAATTTATCTTATTTGATCCTCAAACAGCTCTGTGATGTATAAATGGCAGTGATGTATAAATGATGTATAAATCCTCGAGCCCATTAAGTTTACTGATTAACACTGGCCATCTACCAGGCACTAGCATGCTAAGAGTTTTCCATGAATGATTTCAGTGCCATTACCATATGAGCTAAGTAGTACTTTTTAAAATTATTGCTGTTATTCGGTCGCTCTCTTCATGACCCCATGGACTATAGCATGCCAGGCTTCCCTGTCCTTCACCATCTTCCAGAGTTTGCATAAACTCATGTCCACTGAGTCAGTGATGCCAGCCAACCATTTCATCCTCTGTTGCCCGCTTCTCCTCCTGCCTTTAGTCTTTCCCAGCAGCAGGCTCTTTTCCAATGAGTCAGCTCTTCACATCATGTGCCCAAAGTATTGGAGCTTCAGCTTCAGCATCAGTCCTTCCAATGAATATTTAATTATTAAATTTTATTTTTTAGAGCAGTTTTAAATTGGCAGCAGAATTGAGCAGGAGGTTCACTGAGTCCCCACATGTATGGCCTACCCGGACACATCACAATCACCCAAAGCTGGGTGGTGGTCTTACTCATCCCTGTCTCGGGGGAGAACGCTGAGACTCCGAGAGGGGAGGTGGCGTGTGTGCACTGACTTGTACGCCAGATTAGTGAGGACAGAGGTGGGGTCTGGTGCCTTTCCCACAGTGAGCATTTCCTCCTCTCAGAAAGACGCCTTCTCGTTCCTTCAATGGCTTAAGCTCACCCGGATTCATTGCTTGTGTTTATAG
Seq C2 exon
GTGTTCCTGAGACGCAAAAATGGACGTGAGGACTTCTATCGAAACTGGAAGGCCTACGCTGCTGGATTTGGGGACTTAAAAGAAGAGTTCTGGCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000575:ENSBTAT00000000752:24
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=0.000
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
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGAGTCCTGTACCGATTCCC
R:
AGCCAGAACTCTTCTTTTAAGTCCC
Band lengths:
246-1242
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]