BtaALTA0013584-3/3 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000015784 | HAPLN2
Description
Bos taurus hyaluronan and proteoglycan link protein 2 (HAPLN2), mRNA. [Source:RefSeq mRNA;Acc:NM_001075684]
Coordinates
chr3:14256163-14256821:-
Coord C1 exon
chr3:14256716-14256821
Coord A exon
chr3:14256408-14256516
Coord C2 exon
chr3:14256163-14256407
Length
109 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
CTGTGGCCCCCTCTGCTCAGCAC
3' ss Score
6.07
Exon sequences
Seq C1 exon
ACTGGGCTGACTCCCATCATGCAAGGCAGGATCAGCCTCCCCACTCTCTGCCACTTCCTTCTCCCTTGGGCCTTCACCACCTTCCACAGAGCCCTGGGGAGCCAAG
Seq A exon
CACCCCACCCTGGCCCCCACTACCTCCTGCCCCCCATCCACGAGGTCATTCACTCTCGTCGTGGGGCCACGACCACGCTGCCCTGCGTCCTGGGCGCCCCGCCTCCCAG
Seq C2 exon
CTACAAGGTGCGCTGGAGTAAAGTGGAGCCCGGGGAACTCCGGGAAACGCCCATCCTCATCACCAACGGACTGCATGCCCGGGGCTACGGGCCCCTGGGGGGGCGCGCCAGGATGCGAAGAGGGCATCGGCTGGACGCCTCCCTGGTCATCGCGGGCGTGCGCCTGGAAGACGAGGGCCGGTACCGCTGTGAGCTCATCAACGGCATCGAGGACGAGAGCGTGGCGATGACCCTGCGCCTGGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015784-4-8,4-7,4-6-3/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.008
Domain overlap (PFAM):
C1:
PF0768612=V-set=PU(0.8=3.3)
A:
NA
C2:
PF0768612=V-set=PD(98.3=97.5),PF0019312=Xlink=PU(0.1=0.0)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
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:
CTTCACCACCTTCCACAGAGC
R:
GATGCCGTTGATGAGCTCACA
Band lengths:
243-352
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development