BtaINT0070458 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015784 | HAPLN2
Description
Bos taurus hyaluronan and proteoglycan link protein 2 (HAPLN2), mRNA. [Source:RefSeq mRNA;Acc:NM_001075684]
Coordinates
chr3:14259032-14259736:-
Coord C1 exon
chr3:14259643-14259736
Coord A exon
chr3:14259094-14259642
Coord C2 exon
chr3:14259032-14259093
Length
549 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
CCTGGAAACTCTTTCTCCAGCAG
3' ss Score
3.96
Exon sequences
Seq C1 exon
GTTTCTTGAAGCAAGTGGAGGTCCTGGAAGTCTGGTTCCCACCTTGACAGCCTCTTCCCATAGGCAATGCGCACCCAGGCGCCGGAGGGCAGAG
Seq A exon
GTGAGGACTTTGCTGGGGGAGGGAGAGGGGTGCTGCTTAGAGGAGGATCATATAGAAAAGCAGAGGCAGCTGGAACTCGACACATAGATCTTTGAACCTCATTTGTAATGCATCCCCCTGCCCAGCAGTCCAACATCCTTATACCCACCAATCAATCTATCCCTTCTCTGGTCCAAGAGCATCTAGAAGAAACAAGGCACCCCACTGTCTGCAACATTTCAGGCAATCATTCCTGGGTCGCCTCCTTCACTCCATCCCTCTTCATGGGTTCCCGTTTCATGCTGTGTCTTCCCCTGGGCCCAGGGCAGTGAGTACCGCAGACACAGTGCCCTGTCACAAAGCTGGATCTGAGTCACTTAACGTGGCTTAGTGGAATGATGAGTGGGGGAGTTTCTGGTACCTTGGCTTCTTTGAGCTCAGGGCAGAAGCATTTCCTCAAAGTTGCAAAAGGAGAGACCACACTGATCAGGGGCCCAAGTCCTGAGGCTCTTAAGTGCTTGGACCTCCCCGGACCCAGGCAACTCCTTCACCTGGAAACTCTTTCTCCAG
Seq C2 exon
CAGGACCAAAAGCTGCCAATCACTGCACCTGCCATCTCTGTGAAGAGGCCCACTTCTAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015784:ENSBTAT00000020956:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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]