BtaINT0070307 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019322 | HABP2
Description
Bos taurus hyaluronan binding protein 2 (HABP2), mRNA. [Source:RefSeq mRNA;Acc:NM_001014868]
Coordinates
chr26:34330322-34331780:+
Coord C1 exon
chr26:34330322-34330493
Coord A exon
chr26:34330494-34331682
Coord C2 exon
chr26:34331683-34331780
Length
1189 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAA
5' ss Score
8.59
3' ss Seq
CTTTGTTGTTTGTTTTTTAGAAA
3' ss Score
10.12
Exon sequences
Seq C1 exon
GTCCTGATGACTGCTACGTTGACGACGGCTACTCTTACCGAGGGAGAGTGAGTAAGACCATCCACCAGCACACATGCCTTTACTGGAACTCCCACCTCCTCTTGCAGGAGAAGTACAACATGTTTATGGAGGACGCTGAGGCCCACGGGATTGGGGAGCACAATTTCTGCAG
Seq A exon
GTAAAACTCACCTACGTCTCTGCTCAGCCTTGGCTACTTGTCAGGGTGAGGATTTGCTTGTCCCTTCACCTTGCTCCTAGTTTTCCCGAGTCAGCTTAGAGATTTTGAAATGGAATACTGAAACTCATCAGCTTACTATCAATAGGAAGATTTTCCAACTCAGTATAGGTTAGGTTATGCTGCTGTAACGAACAACCCCAAGCCCCAGTGGCTTGAAAACATCAGTGTTTATTTCTCACTCACACTGCATGTGTCATGTAGATTGGGTAACTCCACAAAGTTACTCAAATATCCAGGGAGGGCAAGGAGAGCCTGGAATATGGAGGATGAGATTTTTACCTCCTCAACCTAGAAGTGACACATCATTTCAGCACACGTATTTCATTGACCAGAAATAGTCACATGGTCCCACACAAACTTCAAGGGAGAAACGGAACATCAGAGGAGGAAACGAAAGGTTTGGTGAGCCTTACAGTCTCTGCCACAAGGATGTGCAGGCTTTCCCAGAAAAGAATAATGTTATTTCCATCCCTGGTGATGACTAGTTACCTTCTTCCCCATCTGCTGCCTCCAGACCATTCTGTTGCCTTCCTCCCTCTGCTCATTGTCTGACCAAGGCCAAGGACATTCTATACGGTCTCCATATAGAAACGGGGATTTTGTGTATGGCTTTCAACTGGTTCCATTAAGCAGAAGGATTTCCCTTGTACAACACACAAGTTCCCTTCCACTTTCGTTGATCTTGAGCTGTTCCTTCCATGGGATTGTCTGCAGGGTAGCCTCTCTCAGAGAATTCTCAGGCTCAAAATTTGAAACTTTGGGCAAATGAGCCCTTCTCTTGCCCTGTTTCTGTATTTATTTCATGTTCCTAACAAAGAAGGGTCTTTAATAGGGATCTCATTTATTTTCCTGCAAAACAATTTGTGTCTTGTGGATCTGGCATAAAGTTTGTGAACTACTTTCTGGTTATTGAGATTCCCCTCCAGAAGTTAACTTGGTCCCAGAGCTATAACCACGCTTATATGCCAAGATTTGCTAACCTGTTGGAGGAATGGAATGGAAGTTAGCTCTGGGTATGGGGGGGCAGAGGGTGTAAGAACTTGATATTCTTTTACCCAAAGGTCCTTTAATGAAGTCCAGTGGGTTCACCAAGCCTCAACCCCGGCTTACTTTGTTGTTTGTTTTTTAG
Seq C2 exon
AAACCCAGATGGAGACAAAAAGCCCTGGTGTTTCATTAAAGTAAACAATGTGAAGGTGAAATGGGAGTACTGTGATGTCCCTGCCTGCTCTGCCCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019322:ENSBTAT00000025732:7
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:
PF0005113=Kringle=PU(63.9=91.4)
A:
NA
C2:
PF0005113=Kringle=PD(34.9=85.3)
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:
GTCCTGATGACTGCTACGTTGA
R:
CTAGGGCAGAGCAGGCAGG
Band lengths:
270-1459
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]