BtaINT0070299 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019322 | HABP2
Description
Bos taurus hyaluronan binding protein 2 (HABP2), mRNA. [Source:RefSeq mRNA;Acc:NM_001014868]
Coordinates
chr26:34334336-34335452:+
Coord C1 exon
chr26:34334336-34334478
Coord A exon
chr26:34334479-34335317
Coord C2 exon
chr26:34335318-34335452
Length
839 bp
Sequences
Splice sites
5' ss Seq
TTGGCAAGT
5' ss Score
2.72
3' ss Seq
TTTCCCCTCTCTCTACCTAGCCT
3' ss Score
10.44
Exon sequences
Seq C1 exon
GATAAAAACCAAATATCTGAAAGTGGTACTTGGAGACCAGGACCTGACGAAGACGGAATTCCATGAGCAGAGCTTTGGGGTGCAGAAGATTTTCAAGTACAGCCACTATATTGAAATAGACGACATTCCCTACAACGATATTG
Seq A exon
GCAAGTCTCTTCTCTTCTATTGTGGCTTTCCCGCTTCTCTTGTCCTGGGTGGATTTCTCTACTGACAGAAAGTTGAGGCTTGGTTTTGGAAGGTGCTCTGCGCAGGTCTTTCATAGACCCTGTAAGGTAGAGCATTTCTTCCAGGGCGTTTTAGTTCTGAAAGGTCTATGTTAGTGTTGCAGATAAATGTGCACAAACTTTTAAACTGAGGGGAAGGAACATCCGATGCAAAGAACGGTGTGCTGTGCAGAGCTCAGTCTTGAATCCCTACTCCCCCACTTCCTAACAGGTTTCACCCTTCTAAGTCTCAATTCCCTCTTCTGTGAAACAGGGACACTGATGTCCAGCTGTTCACTTCCCTGTGTGCTAAGTGACATGATGTACATATGTCCCATGTACATCTGGCACCTGGTAGGCAATGATGTACTTATGCTTCTTGCTCCTTAGTTCTGTATTTCTTCATTCACACACTTCTCACTCTCCCTTCTCAACACTGTGCACGCATGCTAAGTTGCTTCAGTCGTGTCCGACTCTGTGCGACCCTTTGGACGGGAGCCGACTAGGCTCTTCTCTCCTCAACATCTTTCCCCCCACTTAAAGCCTGTTTTTCCAAAATGGTATTCAAAATGATTTCAAACTCAGTTATTGTTCCTTAGCATTACTCTCAGCCTGAAGTGTTATGACTCCTCCCCAGGTGAAGGTTAAAAGCATGAAATGATGACAGAAGAATTTGGGGTATTGGGAGTAGGGTTTTCCTACAACCACCTTCCAATCGAGCTGAAGCTGATGCTTCTTTGACAGAGAGATTTTCATCACCCATTTCCCCTCTCTCTACCTAG
Seq C2 exon
CCTTGCTCAAGCTAAAGCCAGTGGATGGTCATTGTGCCCTGGAATCCAAATATGTGAAAACTGTCTGTTTGCCCGATGGTCCCTTTCTCTCTGGGACTGAGTGCTATATCTCCGGCTGGGGTGTCACAGAAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019322:ENSBTAT00000025732:10
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:
PF0008921=Trypsin=FE(20.3=100)
A:
NA
C2:
PF0008921=Trypsin=FE(19.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCAAATATCTGAAAGTGGTACTTGG
R:
CTGTTTCTGTGACACCCCAGC
Band lengths:
271-1110
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]