BtaINT0070303 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019322 | HABP2
Description
Bos taurus hyaluronan binding protein 2 (HABP2), mRNA. [Source:RefSeq mRNA;Acc:NM_001014868]
Coordinates
chr26:34325448-34327130:+
Coord C1 exon
chr26:34325448-34325558
Coord A exon
chr26:34325559-34327022
Coord C2 exon
chr26:34327023-34327130
Length
1464 bp
Sequences
Splice sites
5' ss Seq
ATGGTGGGT
5' ss Score
6.18
3' ss Seq
CTTCTGCTCATGTGCTTTAGACC
3' ss Score
7.05
Exon sequences
Seq C1 exon
ATTGGACTCCTGACCAGTATGAGTACAGCCAAGAGTATAATAACCAGGAAGAGAACGCCAGCAGTACCACTGCCTATTCTGACAACCCTGACTGGTACTACGAAGAGGATG
Seq A exon
GTGGGTACCAAAGCTGTTTGGGGGCCCTCCCGAAAGGAGAGCAGCCCACCCAGCAGGGAGTTTACATATGACCACATGCAAGGGCTCACCACCTCCTCGCTGAATGGGATCATAAAATAGGTTTTGGAAAAAGTTATTTAGAGTGGCTTTTTGGTTTTGTTTTTTTTTTTTTCAGTTAGAATCATATACTGTGAAAACTGGAGAGGTTGTTTGAGACCATCTCTTCCATCCTCAAATGACAGGGGAAGCAAGTGAGGCCGAGGGGAGCTGACTTAGCCAAGATCACACAGCAAGTTAGTGCATCGTCATTCAGGTCTCCCGACCCTGTGGGTTAGTCATGTTCAAAGTCATTCCCAGAGCTTTCATGACATGCGGGTCCTAATTATGCAGAAGAATTTCGGTTAGCGTCAGGCAGCAGACTGTAGCTAATGCACAGCTGGCATTGGGACTTCCCCTTCAGCTGCGCTGTGTCTTCCTTTCTCTTTCCGCTCTTTGGAAGCTTTGCACGGTTGTTAGGTTGTGCGTGTGCATGCGTGTATTCACACGTGTGCTTCGGCCACCTTTGTTTTTGTTTCCGTGGCTTCCTAACCCACGCAAAGGGACAGAAAGGAAAATGAGAAGCGGGGCCTAAGCACAGGCACGTGACTAAACCAGGAGAAGGAATGGAAAGCACTTAGCAGCTGGAATAAAAGCTGTGTAACTGCGAAGTGGCCTGGAAGGCAGGGCCAAGATCCGGGGCATCAGGGGAACATCAGAAGGGATCATCAAAACAAGAGCCAGGCCCAGGGATCCTAGTTCCTGAACCAAAGAACAATGTGTGTGAACAGAAGGATAAAGAATTCCCCAAGGGAAGATCCATTCAGACAGCCATGAAAAGCCAAAGGCACAGATGAAATATGACAAAATCTAACTGAACAAGTAGTTGAAGAAAGACGAAGGCCACTGGGTCGTTTCCTCCTCGCCGTCAATTCTTCTGTCCCCCTCTTGCTTTGGTCTTCTTTCCTGATGTTCAGAAGGCTGGTGTTTCATTAGGGGTGGGTTTTCGTTCCCCACTCCTGACCTCCACCCCTGGGCACTGGGAGTAGGGGAGGTCTTCAGGCTTGTGAAATGCCTTCAGCATCAGAGACAGACCCCGTGGCACTCCCAGCGAGACTGGGAGGAGAGAGACAGTGATGACGGGAAAGGGGAGTTACTCCAGGAGAAAGGCCCCATCCAAAGCCAGGCCGAGGGAGACAGGCACGATTCCTTCTCGCCTCTCCTCTTACTAACCCGAATCCCTCCCTCTGCCCTTGTGATGGCAGTGTTCCTGGATCTTTAAGGGCAAAGCATGTTTCCCCCTTTCCCTGATAACTGGCTCTGTAGTTCCTCTTTTATTTGGGGGCAGGAGGCAGAAATCCCATGAGCGAAGGGGGGTGTCTCGCCTGCTTTTCATTGCAAACCTTGACTTCTGCTCATGTGCTTTAG
Seq C2 exon
ACCCATGCCTGTCCAACCCCTGTACACATGGTGGGGACTGCCTCGTCAGTGGGGCCACCTTCACGTGCCGCTGTCCGGACCCTTTCTCTGGAAACAGGTGTCAGAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019322:ENSBTAT00000025732:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.421 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0000822=EGF=WD(100=83.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGACTCCTGACCAGTATGAGT
R:
TCTGACACCTGTTTCCAGAGA
Band lengths:
214-1678
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]