BtaINT0150446 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021518 | TMPRSS4
Description
Bos taurus transmembrane protease, serine 4 (TMPRSS4), mRNA. [Source:RefSeq mRNA;Acc:NM_001101973]
Coordinates
chr15:29219107-29222404:+
Coord C1 exon
chr15:29219107-29219236
Coord A exon
chr15:29219237-29222299
Coord C2 exon
chr15:29222300-29222404
Length
3063 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCC
5' ss Score
8.63
3' ss Seq
CCTTTCCCTCCCAACACTAGCAG
3' ss Score
5.3
Exon sequences
Seq C1 exon
TCCGCCTCTCCAGGGACCGATCCACCCTGCAGGTGCTGAACCCCGCCACGAAGAACTGGGCCTCCGCCTGTTTCGACAGCTTCACAGAAGCTCTGGCCAAGACCGCCTGTCGGCAGATGGGCTATGACAG
Seq A exon
GTACCCAGCCCAAGGTCCGGTGGCTGTCACCTCACCCCATGACCTCTCTCCCTCTCTTCCTTCCCTCCTCTTTTCCCCTTTCCCTCTTTCCTTCCTCCTTCCTGTCTCTTTCCTAAAAATTGTAGGTATTGGAGTCAGACAACTGCTTTTGAAACACTTTTCCTTACAAGCAGCATGAAGTTAAATCTTGTAAGGCTCAGTTTGTTGAAGAGTTAATGGAGATGTGTGTGTGTGGTGGGGGGAGGTGGTGAGGCTTCCTTGGTGGTCCAGTGGCTAAGATTCTGTGCTCCCAATGCAAAGGCCCAGGTCTGACCTCTCGTGGGTGAACTAGACCCTGCATGCCATAATGAAGACTGAAGATCCTGCGTGCCACAGCTGAGACCTGGTTGTTGTTTAGTGGCTCAGTCATGTCCGACCCTTTTGTGACCCCCATGGATAGCCCACCAGGCTCCTTTGTCCATGGGATTTCCTAGGCAAGAACTCTGGAGTGGGTTGCCATTTCCTCCTCCAGGGGATATTCCCAACTCAGGGATCGAACCCATGTCTCCTGCATTGGCAGGCAGATTGTTTTACCACTGAGCCACCTGGGAAGCCTACAGACAAATTAATTAATTAATTTAAAAAAAGAATTAATGGGAGAAGCAATGCCAACCTCATAGGATGGTTATGAGAGAGAGAATATCTGCCCCCAAAAGAAAAAAAAAGAAAAAAGAATATCTGCCCCCCCATCCCCCCTCACCCCTATCCCCACCCCCACACACAGTTCAGGCTCCTTATAATCCCCTCCTTTCCTTTACTCCTCAACCCTCATTTCTTCTTGGTTTGGCAAGCTGCCATCCCTGCCCCAGAATACAAAAAAAATCTTATTTATTTATTCAAAGTCCTATTGGTTAAAATTTAGTTTAAATGAACCTGATCTCACTGGGGTTTCATGAGCAATCTCAGCTCTCAGCAAATTTCAAAGGCAGTTTTAAATCTTTAGTGGATGAAAAAATATACAGTTTTAAGAAGGGTAATTAACATTGCATATTTATATTCATTTGATCTTGGCAAAAACCAAAATGGTAGTTATTATTCTATCTGTTCTATAAGTAGGTTCAAAGAAGGTGAATAACTTGATCGGATAGTAGCTGGGAGCAAGAGGGCTGGAATGTGTGCCCAAGACCCCCTAATTCCTGGGTGTCAGAATTATATCTGTTTCTAGGTTGCGTAATTCTCTCTTTTGTGGAGGTTTCATCTATAAAGGGAGGAGAGGGGAGACAGTTGATCACTCAGAGCCTAACTGGAGAGGATAGAAAAGGACCCATGCATTCAGCTGCACAGGGGGTAATCTCTTCCTGGCAGGCCCCAAATTTTAGGATTCTAAGAAACTGGACCCAGAGACTAGGTGTAAATGATACATCCTAGGCAGACATAGTCCATCAGTCAATCACAGAATCCTCTTCCATCAAATCCTAGAGCAGCCTCAAGCTCATTTTTCAGTAAGTACTCTAGACAGACATCACCGATCCATCAGAACTATTTGCGCCTTCTGCTCTCTGGTTGTCAGGTTTCTCCTGCTCTCTGCCCTCCACAGTGTGCAACTTGCAGTACCCTCCGGAAAGGACACCCTGCCCCCTTCATTTCCAAGGAGAGCTAGGAAGGCAAGCCCTGCCCCTGCGTCACCCCTCCCCCAACAGCAACCCCAGCCTGGCCTCCTGGCTGCAGCACCCCCCTCCTACTGCAGGCCAGCCAACTGCAGTGTCAGCTGTACTAGCAGAGCAGGCTGCAGCCTGATTATGAAACCAGGATGTCTCCAGGGGTTCTTAAGGTAAAAGGCTCCTAGATTTTCTGTCCTTCTAAGCTCTTTAAGGCATCAAGCCATCTAGCTCTTGGGCTCTGCAAGATCAAAGCTGATCAGAATTATTCATCATGATGTAACTGGTGAATAGAGGCTAACTCTCCTGGGAATGTCCACTTCCACCATGATCCTTCTTTCTGTATCTCAGATTTCCCTGGCTAGGAGGGCCTTCTTGTTCCAGGACCACAAAACTCTAGATGCCTCAAGATGGGAAGGACTCTGAAGATCATCTGGTCTACCCATCATTAATAGAGGGGGAAACTGAGGCTTAGAGAGACCCAGAGAGAAAATGTGACCTGCCAAGGGTCACACATCAAGCTAGTGTCAGAGCCAGGACAAGAATCTCAGGCTTGAGGGCTCTCAGCACAAAACCCAGCACTGCTAGACTTCAGCCTTTCAGGTGCCATGGCTGGGTCATCCAAGTAGTGCCAGATTCCTGGGTGGGCATGTGAGAGTGTGCCAGTCAGCCAGTGTCTTGGGTTGACCCAAACCTGCATACAGAGCTTACGCTAGCATGACTGGTATAAAGGATAGGCAAGGACAGGAGAGATGGAAAAGAGGTACATTCAGTACAGCAACAATCAGAAAGATGAGACTAATCAGGGAAGACTTCTTGGAGGAGGGAAGACTTATACTCAAGGTCTGAAAGAAAACAAACATGGATTTGTGGAGAGAAAGAGAGATAGTGATCCAAATGAGAGAGATGTTTGTCTGAATGCACGTGAAGCCTGATCTTGGCCTGTCCCACCTTCAAAGGGACCATAAATGTACCCCACTACCACGTTCAGACCAGATGCCTCGTTTGGAGAACCAAATGTCCACATCTAGTTCCCTCCAAGGTAGGGATGGGTGCTAACTTGTTTCCTCTGCCTCCTTGTGAACCAGGAGAAACAGCTGGGACATTTGGAATAAGGACAGAGCTGGGAGTTACAAAAGAGCATCCATAGGATTTCTTCAGAGCTCTGGGCTCTGAACCAGTCTTCCCTGCCCAAGAAAGACATCAGCGCTGTGCTCAGGGCTGAGTCCTGGATGTCAAGAAACATACCTTGTCCTCTAGCAAAGCAGGCACTACCCTCGCTTACCACCTCCACTCTCCTGCCACACCCCACCCAGCACCCTCCGCTGCCCCCTCTCCTGGGAGTAGGGGCTACTCCCACCATCTTGGTCTGAGCTCCTGCCTCAGCTCACATCTCTCGCTCTCTCCCTTTCCCTCCCAACACTAG
Seq C2 exon
CAGCAAACCCACCTTCAGAGCTGTGGACGCTGGCCCAGCCCAAGATCTGGACATCGTCAAAGTCACAGAGAACCTGCAGGAGCTTCAGGTGCAAAACTCAAGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021518:ENSBTAT00000055576:6
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(41.9=88.6)
A:
NA
C2:
PF154941=SRCR_2=FE(37.2=100)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development