BtaINT0070308 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019322 | HABP2
Description
Bos taurus hyaluronan binding protein 2 (HABP2), mRNA. [Source:RefSeq mRNA;Acc:NM_001014868]
Coordinates
chr26:34331683-34333941:+
Coord C1 exon
chr26:34331683-34331780
Coord A exon
chr26:34331781-34333685
Coord C2 exon
chr26:34333686-34333941
Length
1905 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGA
5' ss Score
9.14
3' ss Seq
TATTTCTCTGTGTTTTACAGACG
3' ss Score
9.85
Exon sequences
Seq C1 exon
AAACCCAGATGGAGACAAAAAGCCCTGGTGTTTCATTAAAGTAAACAATGTGAAGGTGAAATGGGAGTACTGTGATGTCCCTGCCTGCTCTGCCCTAG
Seq A exon
GTAAGACTGTGGCTATCTGGAGGTCTGGGAGTGGGGAGGTTGTAGATCCACAGAAGTTCCTGGAACTCTCTCTCTCCCCGACCCTTACTCTCCCTCCACACCTGCTTCACCATTTGCCAACCTGGTGGCAACCCAGCTCCCCGACCCTCTGCTCCCAGGTCGAGCAGACCTGGACAGCTTTGCAAACTCAGGCCTCCTGGCTCCCAGTCAGTGCACTCAGCAAATACTGGCTGCTTGCGTGCCGTATGCCAGGCCTTCAGCGTACAGTGGGGATCAAACATTGGCTGAGCCTCCACAGCCTCTCAGGATACAACATGGACTGAGTTCCAGCTTCACGGTCTTTCTAAAAGTCTGCCTTGGTCCACTTCTCTACCCACATCTGAAGCTATGCACCCTCCTGCCCTGATCAGTGGAATTGCTTCCCTGAACAGTTTCATTTTTGTGCCTTTGCTCTGTCCCACGTTCGCTCTTGTCCATATCTAACCATTCTTTGAGAATCACCCCAAGTAATCACTCCTCCTGGCTCAAATGGTAAAGAATCCACCTGCAGTGCAGGAGAGCTGCATTCAGTCCCTTGGTCAGGAAGATCCCCTGGAGAAGGGAGTGGCTACCCACTCTAGAATTCTTGCCTGGAGAATTCCATGAACCGAGGATCTTGGTTGGCTATAGTCTGTGGGGTCACAAAGAGTCAGACATGACTGAGCAACTGTGACTTTCAATCACTCCTCCAGAAAGTCCTCCATGACTTACCAAGTGAAGCGCTACCTTTCACTCCTTACAAACCTCATGAAATGGACTGGGCACCACCCTACAACTCTTATTGCTCTTTCCTTTGATTGACAATAATCTGTGCAAATGTCTCATCTACCCAACTCTGTCATCTGGGTATCTTCCCCTAGGCACCAAAAAAGCCTTCAAAAATCTATGTGTGCATTAACATAGTTAAATACATAACTGGAGGTCAGTAAAGAATCTGCCTGCAATGCATGAGACCTGTGTTTGATTCCTGGGTCTGGAAGATCCCCTGGAGAAGGAAATGGCAACCCACTCCAGTATTCTTGCCTGGAAAATCCCATGGACAGGGGAACTTGGTGGGCTACAGTCCAAGGAGTTGGACACAACTTAGCAACTAAACTACCAGAGATGGATTTCTAACTGATACTTATTTGCATGTTTTGTTGAAATCCTCTTGCTATACAGTGTTAATGTGAGTTACAGGTATGTACTAGAAGGATTCACAATTTCTAAATGTTGAACTATATTTATAGTTATTTTAAATATGGACTATATTCCACCCGTTGTACAACAAAATAACCCCCTGTAGTTTATTGTATAGCTAATAGTTTGTCCCTTTTAATCCCTGTCTTGCCTCTCCTTCCTGTCTCCCCACTGCTAAGCACTAGTTCATACTCTATATCCGAGTCTGCTTCTTTTTTGTTATATTCTCTAATTCGTTGTATTTTTTAGATTCCATATATAAATCATACACATTTCTATGTGTTTGTATGCACATCAAAATAAGAAGGAAAAAGCAGTATCTTCATCATTAATTCTATAGACTTGCTTTGTGTTAATCAATGTGCTCAACAAATTTTTAAGGGTATGTATAAGCATGCAGGTGTTCTTTTTTTTTCACTATACCGAGTGGACTTGTGGGATCTTCCGTCCTCGACCAGGGATTGAATCTGGGCCTTTAGCAGTGAGAGCACGGAGTCTTAACCACTGGACCATCAGGGAATTCTGCCAACAAATGTTAATTGCACGTGCTCATCCTGTATGCACCAGTACGGTCTCTTAGCTCTGGACAGTAGCTCGGCTTCTAAGGCAGAGCCATATCTCTGATAAGGTCCTTCTGAGACCCCAGAGGGAGGGTGGAAGTGTGATTTATTTCTCTGTGTTTTACAG
Seq C2 exon
ACGTTGCCAACCCAGAGGGAAGACCCACTGAGCCCTTGACCAAGTTTCCTGAGTTTGGGTCCTGCGGGAGGACGGAGATAGCAGAGAAGAAGGTCAAGAGGATCTTTGGAGGCTTTAAGAGCACGGCCGGCAAGCACCCGTGGCAGGCATCCCTGCAGACCTCCCTACGACTGACCGTCTCCACGCCCCAGGGCCACTACTGTGGGGGGGCGCTGATCCACCCGTGCTGGGTGCTGACTGCTGCCCACTGCACTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019322:ENSBTAT00000025732:8
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=0.023
Domain overlap (PFAM):
C1:
PF0005113=Kringle=PD(34.9=85.3)
A:
NA
C2:
PF0008921=Trypsin=PU(21.5=59.3)
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:
GGAGACAAAAAGCCCTGGTGT
R:
CAGTGGGCAGCAGTCAGC
Band lengths:
338-2243
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]