BtaINT0150463 @ bosTau6
Intron Retention
Gene
ENSBTAG00000032152 | TMPRSS6
Description
transmembrane protease, serine 6 [Source:HGNC Symbol;Acc:HGNC:16517]
Coordinates
chr5:75876772-75877924:-
Coord C1 exon
chr5:75877826-75877924
Coord A exon
chr5:75876886-75877825
Coord C2 exon
chr5:75876772-75876885
Length
940 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGC
5' ss Score
8.02
3' ss Seq
CCCCTTCTGTGTCCTCACAGTCT
3' ss Score
11.35
Exon sequences
Seq C1 exon
CCTGTCCTGGAGAGTTCCTCTGCTCCGTGAATGGACTCTGTGTGCCCACCTGCGACGGGGTCAAGGATTGCCCCAATGGCCTGGATGAGAGAAACTGCG
Seq A exon
GTGAGCAGCCCATCCACTCCGTCCCTCCTCTCTCCCCACTTCTGTGCTGCTGGGCTGAGCCTATCATTTCGAGATCTCCCAATGGGCAGCTCCCGTTATCAGCATTCAGGAAACTCCCTCGCTGTGCTGAGATGCAGGGTGGATGCACAGGATGGACAAGTGTCCTCTCCAGGGCTACCCCGTGGGGCAGTGGCAGAGATAAACGGGGACCCAGGTATGCTGCTTCCCAGCTCATGGCTTCTTGCCACCAGGCTATCACCCTCAGCCTTCTGCCCAGGCAGCCATCCAAGAAGGAACAGAGCAGACGAGGGAGGGCAGGACCAGGAGGAAGAAGACTCTTAAGCAGGGTTGGGCAGGCCCAGGGTGGCCAAAGAGAGGACGCTGTAGCTGCCTCTTTTGAGCAGGACCCTCCACTGCAGGGGTTCAGAGCTGCTGACTCTTCCTGGGGCTGTGCTCACCGCCACCCAACCCTGGCAGAAGGGGATCAGAAGGGGCTTCTGACGGTCCCCAAGCCAGGATTCTCTTGGAATAATAATTCTGCCTCTGAATCCTGGCTTCTGGGCCCTAGAGTCACCATCACAGCGCCTGCATCCCATCAAAGTCTATACATGTGAGGAGGGAAGTGGGAGGGAAGAGGGATGTGCCTGCCTCTGCACTGATCCTGCCTTCGTGCTGGGGAAGACATCTCATATTTGGAACCAGAACATCTGGTTCAAGTTCTTGCTCAGCCAGGTGACCTCAGACAAGTCACTTTGTTTCCGTTTTTCCACCAGTGAAATGGAGTATCTCACCGGGTTGCTGTGAGACTCAAGTGTAAAGTGGCTGAGAAAGAGATTTGTGATCATAGCTTGTGACACCATGCATGGTCTCCAGGAGACAAAAAGCCCCAGCCTGGCGCCTCTGGCTTCCTCCCACTTGTCCCCCTTCTGTGTCCTCACAG
Seq C2 exon
TCTGCAGAGCCACATTCCAGTGCCAAGAGGACAGCACGTGCATCCCCCTGTCCAGGGTCTGTGACCGGCAGCCCGACTGTCTCAATGGGAGTGACGAAGAGCAATGCCAGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000032152:ENSBTAT00000045605:11
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:
PF0005713=Ldl_recept_a=PD(94.1=94.1),PF0005713=Ldl_recept_a=PU(0.1=0.0)
A:
NA
C2:
PF0005713=Ldl_recept_a=WD(100=92.3)
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:
GTCCTGGAGAGTTCCTCTGCT
R:
CTTCCTGGCATTGCTCTTCGT
Band lengths:
210-1150
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]