BtaINT0150464 @ bosTau6
Intron Retention
Gene
ENSBTAG00000032152 | TMPRSS6
Description
transmembrane protease, serine 6 [Source:HGNC Symbol;Acc:HGNC:16517]
Coordinates
chr5:75875298-75876885:-
Coord C1 exon
chr5:75876772-75876885
Coord A exon
chr5:75875415-75876771
Coord C2 exon
chr5:75875298-75875414
Length
1357 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGG
5' ss Score
8.76
3' ss Seq
CCCTGCCCCCCCAATCCTAGGGG
3' ss Score
8.34
Exon sequences
Seq C1 exon
TCTGCAGAGCCACATTCCAGTGCCAAGAGGACAGCACGTGCATCCCCCTGTCCAGGGTCTGTGACCGGCAGCCCGACTGTCTCAATGGGAGTGACGAAGAGCAATGCCAGGAAG
Seq A exon
GTAGGGCAGGGTAGGACTAGGTATCTAGAGGGAAACCAGAGAATGGGCTCAGCCAGACAGCCTGGCCCTTCTCCATGCTTCTTCCACAAAGGTTTCTGCCCTCTTGTCCAAATACTTACCAGCCCATCTATAAGTGTGCCTATATGTCCATCTGTTTACCCATCCATCTGTGCATCCATCCATCTATCTATTTATCCATCCAAATACCCATCCACCCATTCTTCCATCCATCCATCCATCCATCTTCTGGTCTCTCCAACCATTTGTATGTTCGTTGATTCATACATCCACTCACTGATTCATCCATCAGCCTGTCCAACCACCTATCTCCCTGTCCACTAAGCCATCAATCTGCTCATTTGTTGGTTTTATTTGTTTACCAAATTACCTGTCTGTACGTCCATTGTTCCATCCTCCATCCATGCATCCATGAATGCACTTGTTCGTGCCTCCGTCCAGGGATCTAACTACTTGTTTGTCCATTGGTACTTACATCCACTCATTTATCCATCTAAATAGCTGTGTGTCAGTCTTATCAGACCATCAAACCACACATTTATTGGTCTGCCCAATCTCTTGTCTGAGTCTCCATTGTTTTATCTATCCATCCACCCACCCACCCATCCCTCAGACCATCCAACCTTCACTTGCAGACTACCCAGTGATATGCAAGGCAGAGTAAGGAAAATGAAATAAAAGGCACCAGAGAAGTGGTCCCCGTCCTCTCAGGGTTATCTGATTAAAAAAAAAAAAAGATGGGTTACTCTCTCTGGGCCAAAGCCTCTGAACATCACGTCCAGTAGCATAGGAAGACTGGAGGGTGGGGAGGAGATGAGGCTGGGAAAGCTAGAGAAGGTGGGCTTTGAACTGGGCCTTGAAGAGAACTTAAATAGAGGAGGTAGCTGGTGGGGCAGAAAGCTCTTCACAGTGAAGGCAGTGAGGAGCAGGTGGGTGTCTAGATGGCTGGGGGCCTGGAGGGCTGCCAGGCCAAGGTAGTGTGATGGGAGGGACATAGCCTTGCTCTTGGGAGCCTTGCTCATCTCAAGGTGGAGGCACAGTTCTGGCTTCAGGTACCACACCTGGGGAAGGCACGACCCTACCATCAGGAGCCCAGGTCTGAGAGGGGAGACGTCACCTTCTCTCATAACACCAGTCTGAGGGAGCGAAGGGTCGGGAAGGGACACGGCCTGCCTCTAGGGATCCCTAAAGGAGCCTCAGGGGACCCTTTAGTGTGATCAAGGCACCCCTCTCCAGTCGTCTCCTGGCCTCTCTCAGGCTCCATCTTCCCTGGACCTTGTTTTGGAGGCTCCTTTGGGTTCAGGGACCCACCCTCTGCACCCTGCCCCCCCAATCCTAG
Seq C2 exon
GGGTGCCTTGTGGGACCTTCACCTTTCGGTGTGAAGACCACAGCTGTGTGAAGAAGCCCAACCCACAGTGTGACGGGCACCCCGACTGCAGGGATGGCTCGGATGAGCAGCACTGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000032152:ENSBTAT00000045605:12
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=WD(100=92.3)
A:
NA
C2:
PF0005713=Ldl_recept_a=WD(100=95.0)
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:
CTGCAGAGCCACATTCCAGTG
R:
CAGTGCTGCTCATCCGAG
Band lengths:
228-1585
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]