BtaINT0073252 @ bosTau6
Intron Retention
Gene
ENSBTAG00000003829 | HPN
Description
Bos taurus hepsin (HPN), mRNA. [Source:RefSeq mRNA;Acc:NM_001080241]
Coordinates
chr18:45971859-45972640:+
Coord C1 exon
chr18:45971859-45972006
Coord A exon
chr18:45972007-45972570
Coord C2 exon
chr18:45972571-45972640
Length
564 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGG
5' ss Score
9.16
3' ss Seq
CCTTGTTCATCTCCCCACAGGTC
3' ss Score
12.6
Exon sequences
Seq C1 exon
GCCAGGCCTAGCAGGCCCCTCGCGCTGCCGCTGCCTCTGCCTCCGGCCCGCCTGCCGCTGCGGGGCCACCATGCTCCTGCCCAGGCCTGGAGACTGACCCTAAACCCGCACCATCTCTCAGCTCCGCCCCCACCTGCCGGACCCCAGG
Seq A exon
GTAAGGACCAGGGTCCTCAGGTTCCCGTCCCCAGGACATGGGTCCCCTCACCCCTACCCACCCTAATGCCCACTTCCCATTAGAGGTGCTCCGAGAGGGGCCAGTCGGACTTCTCTCCAAGGACCTCAGAGTTCTAGCCCCCACTTCTTCAGACTCCCAAGATCGGGTCCCAGTCTCCTCCTCCCTCCAACCCAGGAGTCCAGCCCCTGTGCTGCCCCTCCCTCATAAGAAGCAGTCCTGGTCCCCAAACCTCTCTTTCCCCAGGATCCAGGAGTTGAGGCCTCCAGCTCGCCTTCCTCAGACCCAGGAATTCAGACCCCCAGTCCCCTCTCCACCCCGGCCCAGGCCCAGGGTCCCCCGGCGCTATAAATCCCATCATCCCCTAGCTGCTGGTCACACACTGACCCCATCCTTGAACCCAGCCCAGTCTGTGTCCGTGATCACGGCGTGCTCTGGCCGGGACCCAGTCCCTCAGCCTCCCTGGATGGGCGCCTGGGACTGGGGGCACAGGGGCCGGGCTGGGCTCCCCCAGGCCCTGCCTCCCCCTTGTTCATCTCCCCACAG
Seq C2 exon
GTCCCGCCCCGGCCCCGGAGGTCAGCCGGGGAATCATTAACTAGAGGCTGTGACATGGCGGAGAAGGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003829:ENSBTAT00000004986:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.167
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
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:
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