DreINT0165402 @ danRer10
Intron Retention
Gene
ENSDARG00000087717 | tmprss5
Description
transmembrane protease, serine 5 [Source:ZFIN;Acc:ZDB-GENE-131121-184]
Coordinates
chr15:18237430-18238933:-
Coord C1 exon
chr15:18238789-18238933
Coord A exon
chr15:18237529-18238788
Coord C2 exon
chr15:18237430-18237528
Length
1260 bp
Sequences
Splice sites
5' ss Seq
CTGGTTAGT
5' ss Score
6.32
3' ss Seq
TTTTTTTTTTCTTCAAATAGTGT
3' ss Score
8.65
Exon sequences
Seq C1 exon
AGTCTCAGTAGAGATGCGGTGGCAGTGATTGAGAACCCTGTAGTGGTCAGACAGTCTTTTCATCCAGAGAGTCTGCAGGTGGACATGCTCGAGTCAGACCAGAATAACCACAGGTGCCTCAGAGAGCTGCAGTTTCTCCATCCTG
Seq A exon
GTTAGTCTGTTACTAACACATATTCGAAAAGGCTAAGCAGATTCATGTTTGAACATACATTTTTAAATGTAGTTTATGGTGGCTTGAGAAAGTTGAGAAAGAGATACTACATAAACTTACTATTCTTCTTCTTCTTCTTCTTGCATTTCCTCCTTAACCGTTCTATAACCGTACTACACCCCCAAACTAACACCAAACCTCCAAACTAGTCTGACTCGGGTTGCTATACTTTTTCAACTGATCTGATTTTCGGTTTACCGAAAACTGACCCGGAAAATTCGGAAAAGTACCATTAACTTAAGATTGGACCAAACTTTATGACCTCATAACTTTGCGCCAGACTGTCATACAGACTCAAAGTTGAGCTCATTTAACTCAGACTACCAATCTGCCAATCACTGATGACCTTTCAACTTTCTAGCCACACCCTAGCAACCACTTACGGCACCTTAGCAACTGTCCCATAGACTTCCATTGTAAAAACTGCCATTGACTTTACATAGGACATACTAACAACAAACCAATCCATACTAGCAATATACTAAAAACATACCAATCATACTAGCAACATGCTAATTCATACTATAAACATACTAACAACATGGAAATTCATAATAAAGTCACACAAACAACATGCTAGTTTATACTTGAAATATGCTAGCGACATGCTAATTTACAGTAGAACCATGCTAACAACATGCTAATTTATGCTAGAAACATGCTATTTCATACTAGAAGTCTAACAACTACTCAGAACATCCTAGAAATTGCCTAGCAATGCCTTAGCAACTGTCTAGCAACTACTCAGAACACCCTAGCAATAATTTTGCATTGACCTAGCAACCTCTCAGAATACCCTAGCAACAACTTGACAACAACCTGAAACACCCTAGCAATGCCTTAGCAACTGCTGAGCCACCACTCAGAACACCTTAGCAACTGACTAGCAACACCTAAACAAACAGTCAAATCACCATAGTTATCTCTCTAGGCCAACTGCTTCAAACTTAATAATTACTTCAATTATTTAAAGCTACATCAAACTTTTAGACGAGGCTTACTCAAGTCACCATAAAGTTTGTCTACAAACTTTACTTTTCTTTACGTTTTGTACTTTGGTCATTAGCTCAATAATTGACCAAAATTGACCTGAAATTCGTATTGGTTTCAATTTTGAACTTCAACTGCATGGATGTGAGTCTTGTTGTTGTGTTTTTGGAATAACTGTTGAGAAATGTTCTTTTTTTTTTCTTCAAATAG
Seq C2 exon
TGTCTGGCAAAGTGTCATCTCGTAAACTAGTGAGAGTGTTTGCAGCTCTGTGTGTGCTGTGTCTGCTGGGAGGTGTTGTGGTTGGAGTTTGGTTCATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000087717:ENSDART00000156505:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.020 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTCAGTAGAGATGCGGTGGC
R:
TGAACCAAACTCCAACCACAACA
Band lengths:
239-1499
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]