BtaINT0150359 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020298 | TMPRSS11A
Description
transmembrane protease, serine 11A [Source:HGNC Symbol;Acc:HGNC:27954]
Coordinates
chr6:85337482-85339681:-
Coord C1 exon
chr6:85339539-85339681
Coord A exon
chr6:85337644-85339538
Coord C2 exon
chr6:85337482-85337643
Length
1895 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGC
5' ss Score
9.04
3' ss Seq
TTCTCTTTTTTTCTTTTCAGGGT
3' ss Score
13.06
Exon sequences
Seq C1 exon
GGGAATCCCAAAATGATCTTCGAGAAGCCAGACTGAAAATCATAAGTGATGATGTGTGCAAGCAGCCACATGTGTATGGCAGTGATATAAAATTTGGAATGATGTGTGCTGGATATCTGGAAGGAATATATGATGCCTGCAGG
Seq A exon
GTAAGCGGAGAGAGATTATTTTGATGCCATTAACTCAAAAATATTTTATCTGGCTCAAAAATATTCTATGCTCTTTATATTAGTAAAATACAGAGATTATGTCCATGCAAAAATTTATAAATGCTAATTTCAAACACAAACATTTTAATGTTTTATTAAGCAAAACAAACAAATTAAGCAAAACAAAATAACCAAAAAGCTTCCTTGATGTTATCAAACTAACCAATAAATCTTAATTTTAATATCAGAAATCCAGAGTTTCATAAAGCAGAGTCTCTTTCCTTAAAGAGCTAACATCTAGAAAGGAAATAATCATGAACAATAAACTATGATGTAATAAGTTATATAATAGAGAACAATTTTTTATTTAAAGTATAGTTGATTTACAATACAATGTTAGTTTCAGATGTGGAGAATAAATATTTTTAGCTTGAAGGGAACATCTTTGGAACAAATATGAGAGAGAGAATACTTCAATGAGGCCTGAAAGATAAAGAACATTTAGCTGGTTATAGAATAAGCAGAGAATATTATAGAAAAGAGATAAAGCACAGCCATATTATGAAGGTGTGAAATTACAATTCATATTTGAGGCAACTGCAAGTAATCTGTTGGGTCTCAGCCTAAGGAGGATGAGAAGTGAGAAGCAGTTAATGGTGAGGCAGATTAGGTCAAGTTGTATCTAGTCCCCTTTCCAGGGCCCTCCTCTTGTCCAGCATCTGTCCTGCATGTATATTTTCAGACAAATGCATTTGTAACACATGTTTCATCCTGTAGGCACTTGCTTTATAAGTGTTTACAAGAACATGTGGGGGTTCTTGAAAACTCCAAGGAGGTGATTCCATATGGTGAAATGATGGGAATTGTATTGTCATCAGGTGGCAGAAAACTCTGCCCAGAGTCCCACAGATTACACAGCATAGACAACCTCTGTCAGAAAACCAGCAGGGAGTTGTGCAGCACATGGGCTGGGCCAGAGCAGAATCTGGTATACATCTAGGCTAAGAGTGTGGAGGGAGGCAGCTAGCATTCAGGGATTCCAGAGAGAGGTTCAGGCAAGACAGACAAGTGGAAGGTGGCGACTGGAACACAGAGAACCCGGGAATCTAGGCGAATGGTGAGATTAGTGGTAAGTCTCTGGATAGAGTGGTGGTCATAAAATAAAGAGCTTTCACTGCATTGGGGAGCACAGGTAAGATTCCTGCCTTGTGACTGTGCTGTGCATATAAGGCAGCTCTAGGCAGTTCTAGTCATAAAAAAGTTGGGGAAATCATCAAGGAAGGGACTCAGGCACAATGGAAGCAGGAATACAAGGATGGCTACTAGGGTTCATGGGGAGGGGTTTGGTTCATCTGATAAAACGGAAGCCCAGGCACCCTACTTGGAGTCAGGAAAAAAAAAATCACAGCTTGAAGCCCAGGCACCCTACTTGGAGTCAGGGAAAAAAAAAAAAGTCACAGCTTGACTTTCTGTGTTGTATACTTGAAATCTGCTAAGAGTAGACCTTAAGTATTCTCACCACACACACACACACACACACACACACACACGCACACATACACACCAAGTAACTATGTGAGGTGATGGATGTGTTAATTAACCTGATCATGGTAATCATTTCACAAAGCATATATGTCAAATTATCACAATGTACACTTTAAATATATATGATTTTATTCATGAATTATACATCTATAAAACTGAAAAATAATTTTTAAATGTGGAAATTGAACTTTAAGGCTTTTATAATTACTAAAACCCATGTTTCAATGAATTATCCTGCAGTTGGTAGTCTATAAATATACTTTCTAATAATAAAATATGTGGTTCATCAAAATATCTTAAGTAATGAGTTTCATATTTAATTCATTTTCTTTCTCTTTTTTTCTTTTCAG
Seq C2 exon
GGTGATTCTGGGGGACCTTTAGTTGGAAAGGACTTTAAAGATACCTGGTATCTCATTGGAATTGTGAGCTGGGGAGATAACTGTGGTCAAAGGAACAAACCTGGAGTTTACACAAAAGTGACTTATTACCGAAACTGGATTGCTTCAAAAACAGGCCTCTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020298:ENSBTAT00000027052:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(20.8=100)
A:
NA
C2:
PF0008921=Trypsin=PD(20.4=85.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGAATCCCAAAATGATCTTCGAGA
R:
GAGGCCTGTTTTTGAAGCAATCC
Band lengths:
302-2197
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]