BtaINT0150449 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021518 | TMPRSS4
Description
Bos taurus transmembrane protease, serine 4 (TMPRSS4), mRNA. [Source:RefSeq mRNA;Acc:NM_001101973]
Coordinates
chr15:29226805-29228403:+
Coord C1 exon
chr15:29226805-29226964
Coord A exon
chr15:29226965-29228236
Coord C2 exon
chr15:29228237-29228403
Length
1272 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGG
5' ss Score
9.68
3' ss Seq
TTCACTGTCTCTGCCCCCAGGAA
3' ss Score
12.66
Exon sequences
Seq C1 exon
CCTGCGGACAGAGTGTGAAGGCCCCTCGGGTGGTGGGTGGGAAGGAGGCCTCTGTGGATTCTTGGCCTTGGCAGGTCAGCATCCAGTATGACAAACAACACATCTGTGGAGGGAGCATCCTAGACCCACACTGGATCCTCACGGCTGCCCACTGCTTCTG
Seq A exon
GTAAGGCGCATTCGGGGAGCTCCTGGGGTCAGAGCTGCAGAGGAACCTGAGCACCTGGATCCTCTGTCTCCAATCTGTTGTCTGATGCCCTCCAGCCCTTCCCTTCCCCCTAAAGAAGGGTGTGGCTGCCTAATGAGACACTGGACATGACATCCTTTGTTAGGCCTTGGGGGGTCTTAGCAGAGGGTACCAGTCACCAGGCCTGACTGGTACCAGTCACCAGGCCCTTCCCTTTCGGGGGGGAAGCCAGCAAAGACCCCGTGTCCTCACTCTCCCCTACATCACTCACTGCACAAAAGCACTTCCCATCCGCCTCTGAGGACTCCAAGGGAGGCTTGAGAACTCTCTCCCTTTCTGCTAGTCTTTCAAGAAGTGGTTCCAAATCCCAGGTCCATGCCACTCCTTCATTATATCCAGAAGTTAAAACAGAAAAAAGTATTCTGTTACCAGCCAGCAGAGACAGGCCTGCCCATACCTCTGGAGAAGGACCATTCCAGGTCCTCTTCACCTTCATTCATCCATCTGTTCATTCATTCACCATCTATGAGTACCTACTAGGTACCACGTGCCTTCGTGCAGCAGACGCCAGAAGTGCCTCAGAGGAGCACACCGTGTAGGCCAGTGATTTTTAACTTTTTTGGAGAATCTGATAAAAGCTATATTTCCCCTGTGCACTCAGCTGTGTCTGGTGTCAGGAAGAAGAAAAGTACAGTAAATTCCCTACATATGAATGTGTTCCATTCCAAGAATACGTTTGTAAGTCCAATTTGTTCATTAACTTCAACAAAGTTAGCCTAGGTACCCAACTTTTACAAATAGCGCCAGACACATTAACTAACTTACATGATTGGAGATGCAAACACACATTCACATCTTTGAGAGTCTTCAACTTGAAGGTTCATACGTAGGGGACTTACTGTATACAATAGAACTGACCATAATGCAAGTATCACATGAGTAACAAGACCAGTAAAATGCACTAGAGTGTCAGGACCCAGAGCACAGGCACTGAGCATAGCCCATTCCCCAGCCCTCCAGTTTTAAGTTTCTTCCAGCAGGTTTCACCAGGGAGAAGAATCAAATCCCCTTTAGAATCTGACCTGCAGTAGGTGATTCCTCAGATGGCCCTTCTCCAGCACCCCTGCCCTTATCATCATTACCCGCCAAGGCAGGGACATGCAGCACCCACTCCCCAGGGCCCCGGAGACCCAGCCTTTAGCAAAACCTCCTCACGCTTGACTCGGACCTGAGCTTCACTGTCTCTGCCCCCAG
Seq C2 exon
GAAGCATCTCGATGTGCCCAACTGGAAGGTGAGGGCTGGCTCAGACAGATTGGGCAGCTTCCCATCCCTGCCTGTGGCCAAGATCTTCATCCTTGAGCCTAACGCCACATATCCCAGAGAGCACGACATTGCCCTCGTGAAGCTGCAGCTCCCGCTCACGTTCTCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021518:ENSBTAT00000055576:9
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=PD(5.4=9.3),PF0008921=Trypsin=PU(19.1=79.6)
A:
NA
C2:
PF0008921=Trypsin=FE(24.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACAGAGTGTGAAGGCCCCTC
R:
CGGAGAACGTGAGCGGGAG
Band lengths:
321-1593
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development