BtaALTA0013540-1/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000019322 | HABP2
Description
Bos taurus hyaluronan binding protein 2 (HABP2), mRNA. [Source:RefSeq mRNA;Acc:NM_001014868]
Coordinates
chr26:34329695-34330493:+
Coord C1 exon
chr26:34329695-34329814
Coord A exon
NA
Coord C2 exon
chr26:34330322-34330493
Length
0 bp
Sequences
Splice sites
5' ss Seq
TAGGTATGG
5' ss Score
7.37
3' ss Seq
CCTTGCCTGCTCTCTCCGAGGTC
3' ss Score
1.64
Exon sequences
Seq C1 exon
TGGTTCCTGTGTGCAGGCCAAATCCCTGCCAAAACGGTGGCACCTGCTCCCGGCAGAGGCGGAGGTCCAAGTTCACCTGTGCCTGTCCTGACCAGTTCAAGGGGAAGCTCTGTGAAATAG
Seq A exon
NA
Seq C2 exon
GTCCTGATGACTGCTACGTTGACGACGGCTACTCTTACCGAGGGAGAGTGAGTAAGACCATCCACCAGCACACATGCCTTTACTGGAACTCCCACCTCCTCTTGCAGGAGAAGTACAACATGTTTATGGAGGACGCTGAGGCCCACGGGATTGGGGAGCACAATTTCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019322-9-8,9-7-1/2
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=0.000
Domain overlap (PFAM):
C1:
PF0000822=EGF=WD(100=80.5)
A:
NA
C2:
PF0005113=Kringle=PU(63.9=91.4)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
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:
ACCAGTTCAAGGGGAAGCTCT
R:
GCCTCAGCGTCCTCCATAAAC
Band lengths:
172-241
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development