BtaINT0070301 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019322 | HABP2
Description
Bos taurus hyaluronan binding protein 2 (HABP2), mRNA. [Source:RefSeq mRNA;Acc:NM_001014868]
Coordinates
chr26:34336435-34340148:+
Coord C1 exon
chr26:34336435-34336580
Coord A exon
chr26:34336581-34338834
Coord C2 exon
chr26:34338835-34340148
Length
2254 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGA
5' ss Score
7.41
3' ss Seq
CCTTGCATCTTTTCCCATAGGGC
3' ss Score
11.48
Exon sequences
Seq C1 exon
GAGAAGGGTCCCGCCACCTCCTGGATGCCAAGGTCAAGCTGATCAGTAACACAATATGCAACTCCCGCCAACTCTATGACCACTCGATCGATGACAACATGATTTGTGCAGGAAACCTCCAGAAGCCTGGACAAGACTCCTGCCAG
Seq A exon
GTCAGAGACTCCACGTGGCATTTGGAGAAAGCAGGGCCTCACACAGGGGCACAGAGGGCACTTAGAGCCCCGGGCAGGGAGGAGGGGCAGAGACCCACTTGCCATTCGGTCAAGGTGGGCACATCTGTCCTCTGAGGGCTCAGCATCAATACCTAGCAGTCACTCTGCTCGCTGTTGTTGAATTTGATTCTGACCAGTCTGGTGAAGGATGTCACTGTCACCATTGTACAGATGCTTAGAGAAATTATCTTGGTCCACAGCTCCTGGGTGGAAAGTGCAGAGCAAGAACTTGCTCCTCTGTGTTAAAATGTGAAGAGGGTGTTTCTGCCCTCAGTGCTGGGCAGCTTGTCTGCAAATCCCAATAAGCAGGGGACATTTGCAAAGACCAGTGGTTAGAAAGAGAAAGATGAGGGGCCAGAGAATTCACAATATTGAGTCACCATTAGGATTTAAATGTGTGTGTGTGAAGGGGGAAGGAGATTTACCCCTAATACACTAACTGGCTGAGTGGCTCCCCTGTGGCCAGAGCCAATTTAGATCCTGCCTGACACCCACCCCCAGACAGGACTTTGGGGGGCAAGCATGGGCACCCTCAAACCTGAGCTCCTCCCTACAAAGAAACTCAACAGTGATCTGCAGCCTCGAGCCTACTTTGGGATGGGAAATCATGGTCACTCTCAGGGTCTGTGGCTCTCCTGTGACCCTCTGTCCTTTTCCAAGGAGCCGCAGGTATCTACCTACTTAAAGGAAGGGTATGAGCAGATGGGAGTGATTTTCCCTGAGTCCCTAGAAGATGGATAAGGAAACATATTGCAGGATTTTAAAAAGACAGTCAAAGGTTTGAAACCTGCTTCTGTCCTTTACTTTGTGACCTGTCAGTCACTGAATGGCTTAGTCAGCCTGGGCTTCTATATAAGTGACCTAGACTGGGTGGCTAAACAACAGACGTTTCTCACAGTCCTGGAGGCTGGAAGACTGAGATCAGGGTGCCAGCATGGTTCCAGTGGGACCCTCTCTGACTGCCAACTTCTCATCGTGTCCTCATGTGGCAGAAAGAGAGAGAGCTCTCTAGGTCCCTTCTGCATGCGTGCTTGGTCACTCAGTTGTGTCTGACTCTTTGCAACCCCAAGGACTGTAGCCCATCAGGCTTTTCTGTCCATGGGATGTCTCAAGCAAGAATACTGGAGTCGGTTGCCATTTCCTTCTCCAGGGGATCTTCCTGACCCAGGGATCAAATCTGGGCTTCCTGCGTTGCAAGTGGACTCTATACCAACTGAGCCACAAGGTTTCGACAAGGGCACTAATCCTGTGCATGGTCCCCACCCTCCCAACCTAATTACCTCCCCAAAGCCCTATCTTCTGATAAAACATTAGGCTTTAACACAGGAATTTGAGCAGGGCAGGGAGGACACATTCAATCTGCTGCCCTCAAATAATTAGCCAACATTAAGTGTCTAATCTATAAAATGGAACTAGGGTATCCATAAAATTGGGAGATTGTGGCTAAGATTGAAAGAAATAATTCATTAAATATCCTACCAGGTGTGTAAGTGGGAGCACATACGTGTGTGTGTATGTGTGTGTGTGAGCTGTCCTTCTCATTCCTGCCCTCCTCACCATCTTCCTCCTCTCCACTCTAATTGGGGGTTTAATGTGAACCATGCACTGTCCCATAAGCCTTACAAACCTTAGTCCTCACAAGAACCCTCGGGTGGGTTCTGTGGCCACCTATGGTTTACAGTGTGAGAATGGAGGCTCCACAGGCCAGCAGATGGACAGCCTGGCTTGGAGACTGGTAAATCTAAGCCCATAGACCATGCTGAACATCATGGCCATGCTGCCTCTGAACCCCATCCTTCCTGACCAGTGTGTGCCCTGCAGGCCCTGGAAGGTGCTCTATCCAAACAGGGCATCCCTCCAGCCCCTGCTAGATCCCAGGATGGAATGAGAAGTCGAGAGCCCCTTAGTAATACCTGCATCACTGAGTCACGGTGGGTTAGGAAGTCAGGGTATGACCTGGGCCTGGCCGCATGGCTTCTCTGCCAAGCCCTCTCTGACTTAGGACACAGGTTGGTATCTGCTTCTCTCCCTTCGGAGCACTGCATCATATGAGGCATAGGAAGAACCTTGTTGCCACTTTCCCCAGGGCTGGCCAACAATCCCACCCCTCACCCCCCAGCATCCCCTCACGGAAGGCAGGGGTGTCTGAGTGTATACTGAACCACAGAGTGGACCCTTGCATCTTTTCCCATAG
Seq C2 exon
GGCGACTCCGGAGGCCCTCTGACCTGTGAGAAGGACGGCACCTCCTACATCTATGGGATCGTGAGCTGGGGCCTGGAGTGTGGGAAGAGGCCAGGCGTCTACACCCAAGTGACCAAATTCCTAACGTGGATCAAAGCCACCATGGAGAAGGAGGCTAGCTTCTGAGGTGTCTTGTGAGGCTCACAGCCCGTCCTGTGAACACCCAGACAAGGCGAGGCCCTGTGGGCAGCAATGGACGCCCCCGGAGCCTCTGAGTACACAGGCTCTCAGCAGAGACCACTGCTGCCCAGCCCAGGGTACCAGGGACCGGCATGGCCCCCGCTTCCTCAGGCTCCCTCCTGGGAAACCCAGAAATGAGAGAATCAAGCTGAAGTGCATGACGTTTGCTTCCCTTCCAACAACCGTAGCTTCTAGAAAATCAGTGTTCACAGCCTGCCTTCACTTGGGACACTGGCAAGTGAGAGCCTTCAGACGGCTCAGCATCGGTGGGGGTCACCTTTACGTCTTTGCTCCTCAGACACTCGAGGTGCACGACAGGGCGCGCCACCCACTGCTAGGTGCTAGAGGACCAAACACAACATTCTCCACCCACTTTCAGGGAGCTGTTATTTTAATAAGGGAGGGCTAGGGCAGGGGCGCCGTTTTCACAGCTGGCTCCGACTGAAGCCATGTCTCTGGCGTGCAGATCTCCTCTCCAGCTTCTCTCCCAAGAACCAAGGGTGGACGCTGCCCACTCAGAACAGTGGGGCCTTCCTCCTTTTGACGTGCAGAATCTCGGTGGCATCTGGGTTTACAAACCCGCTCTGATCATCTCTGGGCTCCACAGCCTCCGGCCCCCCCTGCAGAAACCAAACACACCTCCCTGAGTGAAGCGGAAGCTCCCACAAGACAAGCTGTCTAAAAAGCTCGCCCTCTCCTTCCTTTCTCCCTCTTCCATCCTCCCCAAGAAAAAGGAACCTCACGGCAAGAAAAAGAAAGCAGCAGAGCCCATCTCTCATTTAGACGGGGCGCCTTTCTTCTGAACAAAGTAGGGTTCAAAACCCAGACTGTGGTAGACAGTGCAGCTCTGACCCCTTCCGCGCATGTAACGAGCAAGCAGTCAGCACAGCCTGGCCTGTGTGGCCAGGATTGATGTAGCCCTGGCACGCTCGCCTCCGAAGAACTAATGGCTGTGACTTCAGAGAAAACCCCGCAGGAAGTTAACCCAGGTGTCATCCGCCTGGTCATCTCAGACCCATGAAATTAGGCACCTTGCCTGAGCTGCATTGCACGCATCTTTAGAGCCAGCTAACCTTTGGCCAAAAATAAAGTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019322:ENSBTAT00000025732:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
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=PD(18.1=78.2)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]