BtaINT0150440 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021518 | TMPRSS4
Description
Bos taurus transmembrane protease, serine 4 (TMPRSS4), mRNA. [Source:RefSeq mRNA;Acc:NM_001101973]
Coordinates
chr15:29229813-29232003:+
Coord C1 exon
chr15:29229813-29229955
Coord A exon
chr15:29229956-29231853
Coord C2 exon
chr15:29231854-29232003
Length
1898 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCGG
5' ss Score
9.13
3' ss Seq
TGCTCTGGCCTCTCTCACAGGGT
3' ss Score
9.93
Exon sequences
Seq C1 exon
GGAAGATGTCTGACATACTGCAGCAGGGATCCGTCCAGCTCATCAACAGAACTCGGTGCAATGCAGAGGATGCGTACCAGGGGGAGGTCACCAAGACGATGATGTGTGCAGGCCTCCCGGAGGGCGGCGTGGACACCTGCCAG
Seq A exon
GTGCGGCCTCCAAGGATCATGAGGGAATTACAGAGATAGGGGAAGTCTGCTCTGAAGAGATGAAAAAGTTCAGAGGATGAATGCCCCCACATGAAGGCTTGCACATGGTGGGCACTCGGTGTGTGATGAAGGGAGGAAGGGGGAGAGGGAAAAAGATATAAGGATGGATGCATGCATGGATGCATGGATAGACAGATAGAAGCAAAGAGATTTCAAATGTATATTTTACATACAAAGATGATGTTTCCCTCCCCACCTGCTCTTACTTCCCGTCATTTAAAACAGTATGAGCCCCTAGCAGGCAGGAACCCCAGGTCTGTTTTCTCTACAACTGTCCTCAAGCTGCTGAACTACACTAGAGAAAACCCATCTCGTGCTGGATAAGCCCCAGTGCACTGTCCTTCACCCATCCTACTGGCCAGTCCATGAATATATTCTCACATCCCCACCCAGAGGATCTTCTCAACTATTTTCGTTAAAACCCCAAACCCTTCTCCCACCCCCATTCTCAGTCATTAAATTCCTTCACTCAAGAGGCATCTCTTAGTCATCTCTTGATGACTTGATATCAGGTAGATGCAGAACTTTGAGGACAGTGTCTTCCCTCAGGGAGTTCACAGTAATGGGGGCGGGGGTGAATAACTCCACAGGCAGTTCAGCTACAGAGTTATTGGGTTCTGAGGGATGAAACCCCGGAGGCTATAAGAGCTGGTAAGAAGGACACCCAAATAAGTGAACTTTTCACTCTCTCTCATTTTTTGTACAAGAAAATGTCATTTTGTAGTTTGCTTGTTCTCTCTCTCTCTCTCCATTTAATTCTAAGCTCCCTTAGGGCAAGGATCTTTTCTCTTTTCATTAATTGATCCCAGTTATCTAGAACAGTGACTAGCATGAAATAAGCCCCCCTGTAATGGTTCAATAAATCTGGAAACTACTAGGTTAGATGGGCTTCCCAGGGGGCTCGGTTGGTAAAGAATTCGCCTGAAATGCAGGAAGTGCGGGTTCTATCCCTGGATCGGGAAGATCCCCTGGAGAAGGGAATGGCTACCCACTTCAATATTCTTGCTTGGAGAATCCCACGGACAGAGAAGCCTGGCGCGCTGCAGTCCATATGGTCACATAGAGTCGGACATGAAAGAGTGAAATAACCTTAATATGTTCCTCCTTACATGAAGATAACATATATCTCATGTTTTGTCACCTAAAGGTGACTTATCAAATATGCTTANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTGCGACCCCATAGACGGCAGCCCACCAGGCTCCCCCATCCCTGGGATTCTCAAGGCAAGAACACTGGAGTGGGTTGCCATTTCCTTCTCCAATGCATCAAAATGAAAAGTGAAAGTGAAGTCGCTCAGTCGTGTCCGACTCTTAGCGACCCCATGGACTGCAGCCTACCAGGCTCCTCCGTCCATGGGATTCTCCAGGCAAGAGTACTGGAGTGGGGTGCCATTTCGTTCTCCAGCACACACTGAGTTAGACAAAGATAACCAGGCTTCTTTACTACAGGACCCCTTAGAGCCCTCACTGTGCTAGTGTGAGTTGTAGATCTCCAAGAAAGGGCTAACAGCACACCCACAACTTGCTTGACTGCAGACAAAACCCTTTCACCCCGAAAGGGAAGGGCATTCCAGGCTGCAGGAACAGCAGGAGCAGGGGAAGTGAAGGTGGAACAGCAGAGGGTGCTGGAGAGCAGGGACCAGATGGGCCAATGCAGTGAGGGGAGGGTGGAGAAGCCCACCTCTCCACCCCAGCCCTGCCCACCCTCCCCAGCAGCCTCTGCTCTGGCCTCTCTCACAG
Seq C2 exon
GGTGACAGTGGTGGCCCTCTGATGTATCACTCTGACTGGTGGCAAGTGGTGGGCATCGTGAGCTGGGGCCATGGCTGTGGGGGGCCTACTACCCCAGGAGTATACACTAAGGTCACAGCCTATCTCAACTGGATCTACAATGTCCGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021518:ENSBTAT00000055576:11
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=0.020
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(20.9=100)
A:
NA
C2:
PF0008921=Trypsin=PD(19.6=88.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCTGACATACTGCAGCAGGG
R:
CTTCCGGACATTGTAGATCCAGT
Band lengths:
286-2184
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development