BtaINT0073257 @ bosTau6
Intron Retention
Gene
ENSBTAG00000003829 | HPN
Description
Bos taurus hepsin (HPN), mRNA. [Source:RefSeq mRNA;Acc:NM_001080241]
Coordinates
chr18:45979118-45979349:+
Coord C1 exon
chr18:45979118-45979219
Coord A exon
chr18:45979220-45979307
Coord C2 exon
chr18:45979308-45979349
Length
88 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGA
5' ss Score
6.29
3' ss Seq
CACTTCTGCCTTCTCTGCAGTGA
3' ss Score
7.91
Exon sequences
Seq C1 exon
GTGGCCGGACTGTGCCATGCTGCTCCGGACCCAAGGTGGCCGCTCTCACTGTGGGGACCGTCCTGCTCCTGACAGGCATCGGGGCAGCGTCCTGGGCCATTG
Seq A exon
GTGAGAGTGGACAGACCCCTGCACCTCTACCCTCCCCTGCCCCTGGCAGCCCCCAGCCTGCCTGCCCTCACTTCTGCCTTCTCTGCAG
Seq C2 exon
TGACTGTTCTACTCAGGAGTGATCAGGAGCCACTGTATCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003829:ENSBTAT00000004986:3
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:
NO
A:
NA
C2:
PF092725=Hepsin-SRCR=PU(3.6=26.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGCCGGACTGTGCCAT
R:
TGGATACAGTGGCTCCTGATCA
Band lengths:
143-231
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development