BtaINT0150455 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017650 | TMPRSS5
Description
transmembrane protease, serine 5 [Source:HGNC Symbol;Acc:HGNC:14908]
Coordinates
chr15:24585424-24586018:-
Coord C1 exon
chr15:24585880-24586018
Coord A exon
chr15:24585538-24585879
Coord C2 exon
chr15:24585424-24585537
Length
342 bp
Sequences
Splice sites
5' ss Seq
TAGGTAACT
5' ss Score
6.43
3' ss Seq
TATTCCCCTTTCTTATCAAGACT
3' ss Score
4.19
Exon sequences
Seq C1 exon
TATCTTTCAGAATAAACACTTCTGAGGACTTCTTGCTGGAAGTACAGCTGAGGGCCCGGCAAGACTGGCTGCTGGTGTGCCATGAGGGCTGGAGCTCTGCCCTGGGGGCACGTGTCTGCAGGAGCCTCGGACATCTTAG
Seq A exon
GTAACTGGGGCTGGACCTGGGGCCTGGGGAAGGTGGAGGGTGGGTGGGTCGGGGAGGGGCTTTGGAGACCCTGCCTGCTACCCTCAGAGTATTCAGGAAATGACAAGAGGTCATTTTGTCGTCTCCTGGCCTCTGGGCATGATGGCAGCCTGTTTCTCTCCTTTGGGCATCCTTGCTTTTCAACAAAATATAAATCCCAGCAGAAGTCATTCATTGTCAAAGTCTTGCTCAGTCATTACCCTGGTGCAGTATTTCCTGTACATTCTGTTATACTAACCCCTCTTCTCTCATATTGCCATTTAAAGCCAATTTCTTCCCATTTTATTCCCCTTTCTTATCAAG
Seq C2 exon
ACTCACTCACCACAAGGCGGTGAACCTGTCTGATGTCAGGCTCAACAGTTCCAGGGAGTTTGCTCAGCTCTCTCCTAGACTGGAAGGCTTCCCGGAGGAGGTGTGGCAGCCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017650:ENSBTAT00000023479:4
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:
PF154941=SRCR_2=PU(39.8=83.0)
A:
NA
C2:
PF154941=SRCR_2=FE(38.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAGAATAAACACTTCTGAGGACT
R:
CTAGGCTGCCACACCTCCTC
Band lengths:
247-589
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development