BtaINT0070464 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001740 | HAPLN3
Description
Bos taurus hyaluronan and proteoglycan link protein 3 (HAPLN3), mRNA. [Source:RefSeq mRNA;Acc:NM_001098981]
Coordinates
chr21:20880599-20886141:-
Coord C1 exon
chr21:20886106-20886141
Coord A exon
chr21:20880780-20886105
Coord C2 exon
chr21:20880599-20880779
Length
5326 bp
Sequences
Splice sites
5' ss Seq
ACGGTACGT
5' ss Score
11.34
3' ss Seq
GCTTGTTTTCCTCCTCCCAGTTT
3' ss Score
8.28
Exon sequences
Seq C1 exon
GGAGCGCTCGAGCCGTCGAGGAGCCGCCTGGGGACG
Seq A exon
GTACGTAGCTCAGGGGTGGCCGGGCTCCTGGGGCGCCCTATGGACCAATTCCTCTCTTCCCGCTTTCTCAGCCCCACGCTTCCCGGGGGGTTGGGGAAAGCGGGCAGGAGGAGTGAGCCGGGCCCCGTGGGGCCGGGGCCAAGTTGGGTTGTGATCGCCGCCGCCGGTCGGGGGCGCCCCGGGCGCCCGCGGGTTCAGAGCAGCGCGCGGCGTGGGCTGGCTTGCGTGGGACCCTTGTGCATAGATCGTGGTCGGCGAGGAGGCCAATTCAGAGGGAAACCAGTGGCCTCCGAGACCACCTCCCGGGTCTCCTCTCTCCCACCGGGTCTCTTCGCAACTTATCCCGCAGCCTCCAGCACAGCGCCGCAGGCGCCGGGTTCTGCCCTGGGGCATCAGTTGGATGCTCCTCTGTTGGGGGTGGGAGCGGGAGAGGGTGTCGGGAACACTGCGAGGGGCTGGGGACACCTCCTGAGGCAGCGGGCGGGTGGTCCTCTGCCGGCCTGCTTTGGCCCTCTCAGGGCAAACGCAATGGATGCTCGTGGGTTTCAGGCCTGGTTTCAGTGGGAAACTTAGGGAACTTAGGGAAACTTAGGGAACAGCCAGAGCGCGCGGAGAGTAAAGTTCTGGGTGGGAGATGGGATCCTGTAGGGAGGAATTTAGGGCTCCTGAGCAGCCCGGAAAGAAAAAACAAAAAACAGCGCCGGACACTTGGACCCAGCTCTGTCACCAACTCGCTGGGTGGCCTTCAGCAGCCTGTGACCCGGTCTGGACCTTGACGCCCAGCGCTGACCTCCGGAGGGCCTTTTGTCCTCTGCCCCAGGAGGAGGTGACCGAGAGGCGCCCTGTTCCCTCTCCCACAGCCCTGCACGGGCCAGCGGGCTGGGAATGCTGGTAGGAAACACCTCCGGACTTCTACTTTCCGGGAACCGCAGGTTTCAAAGGGCTTGGGGCACCGAAGTCAAATTCCTCTCCGGGAGCAGGCTGATGGAGACCTGGAGGGCAAGGTTGCCCTCTGCTGGTGTCAGGGAGACGTGTGCTGCCCGGTGGTGCAGTCGGGGTACCGGCTGTAGCTCATCTTCCTAACAAGTCAGGGTTCAGCTTATTCTGATGTGCAGAGGGGTCCTAAGCCAAGTGGTGGCTGGGAAAAGCAAAGGATGGGTCGTCAGAAATCAGGGAATCCACACATCTTGTTTCGGTCATTCCAATTCATTAGTGAGCTAGGGGAAAAACCCAGACCAGAAACTAAGAGCTGTTTTGGCTCAGGGCTTAGTTTCTGAACCTTGAATTACTTCATGCATGACTGGTAAGAACCCTAGGGGAGCAACGTCGGTATGACATGGTCTGGTGGTGATTTTTTTTTTTTTTCCAGCTCACTAATGTATTAAAGTGACCAAAACAAAGAGTTCTTCACCATTAAAGAGCAAACCTCAGCAATGTGTGAATTCCTTAAGATAAATGCTGTCAGTCCTGCAGAAAGTGCCTTTCTTATTGATGTCCCTCACTATTTGAATGCTTGTTATTCACTGTCAGCACTCAAGAACCAAATAGATTTGAATAACACAGCATCCCTCCCTGTCCAGATTCCCCAAACTCTCAGTATCCAAACTCTTGCCATCCCATCTGAAGGACACGAGAGATTTGGTGAAGGAGGAGCACTGTACTGCTGGTTTAGCTGCTGAACAGAACTCAGTATAAAGTTCTACTGATAAAAGTAGAAACCAGGGACTTCCCTGGTGATCCAGTGATTAAGAATCCACCTTCCAATGCAGAGGACGCACGTTCGATCCCTGGTCGGGGAATTACATCCCACATACCTCAGGGCCATGGAATTCTCCTGGCCAGAATACTGCTCAGATTGACCCTTCGGGTTGACCCTTTGGTCCGGAAGATCCCCTGGAGAAGGAAATGTCAACCCACTTCAAATTCTTGCCTGGGAAATTCCATGGGACAGAGGAGCCTGGTGGGCTGCAGTCCATGGGGTCACAAAGAGTTGGACATGACTGAGCGACTAGCACTACCTCAGGGCAACTAAGCCTGTGAGCAGCCACTAGAGAGCCCACAACTAGAGAAGCCTGTGCATCACAACTAGTGAGCCCACCCACTGCAACTAGAGAAGCTCCTGTGTGCCGCAAGTAGAGAAAAGCCTGCCCAATGGAAAGAGACCCAGCACAGCCAAAAAAAAGTGGGAAACAGCTGAAGAAGTTGCAAAGACATTTCCTCTGTGTTAAAAAACAAAACAAAACATTTAAGAAGATGACTCTACCCTGGGTCAGACTTTTAATTTTGGTAAACCTGGTATCTTTTGGAATCCAATGCCCCGAAGAACCCACATCCTGAAGGAAGAAGCGTGTACCCAGTGGTGGGTGAAAGCTGCAAACTGCAGATTGACATGCTGGTTTTTTTTTTTTTTCAGGATTGCTCTTGTTTCTGTTAGTGCTCTGGTTACAAAGTTGCATGTGTTTTGAGCTGTTGAGTTGTTCAGTCCTGTCCGACTCTTTTGCGACCCTATGGACTGTAGCCTACCAGGCTCCTCTGTCCACCGGATTTCCCAGGCAAGAATACTGGAGTGGGTTGCCATGCCCTCCTCCAGGGGATCTTCTAGACCCTCTAGACCCAGGGATCACACCTGTGTCTCTGGCATCTCCTGTATTGGCAGGTGAATTCTTTATCACTGAGCCACCTGGGAAGCTCCTGTTTGTGCTTAAGCTGCTTAGATCTAAGTCACCAAGAGGCTCTGTGGATGTCACCTGGGGATTTGTCTTGGACAGGAGCGGGGCTCACAGCGTCCTCCTGTCATGCACAGCACACAGGGCAAGTCTGGGCTTTGGGTTCCCTGCAAAGAGCCCCTCCCTGGGCTTTGGGGCTCCCTCCCATCAACTTCCTTCACATCATTGCTTCTTCTCCAGTAAGAGCGCCTAACTGTTCTGAAAACAAGAATGTTTCCTCCATGTTCCACCACTCTTACAGGCCAATGCTTTTCTTCTTTCCCCTCCCTTCCTCTCCCTTTCTCTGGTTTTGCTGTATCCCTCCCCTTCTAGTTCCTGTACACAGGCATTCTTAGGGTCACACACAATCATAGCAGAGTGGCAAGTCTGTGTTCTGCTTTGTCTACCCTAAATTATACCCTGTGCACTTTCCACGTTGCTGCCTGATGATCATACTCATACTTCCAAATGCCTGCTGTCAACTCTGGTATCGCTGCCCCAGAGTCCGCTTTCCATTCAGGTGCTGGAGGGATGTTTTTAACATGTAGGTCTGATCCTGTGGCTCCTCTGCCTAAAGCCACTACTAGCACCCAGGGCCTTGGGGACAAAGGACAGGCTGCTGAGTCTGACACCCAAGGGCATCTAGACACTGGTCCTTCTGTCCTCCTCTCCCAAGTTTCAGCCAGAGCCTTAGCAGAAAGCAGAATTCACCCTGGATGTTTCCAATAAAGACTCTCTAATGACGGCCCAGGGGTAAAGAAACTACCTGCCAATGCAGGAGCCACGGGAGATGGTGGGCTTGACCCCTGGGCTGGGAAGATCCCTTGCAAAAGGAAATGGCAACCCACTCCAATATTATTGTCTGGAGAATCCCACGGATAGAGGAACCCAATAGACCACAGTCCATGGGGTTGCAAAGATTTGGACCCAATTGAAGTAACTGAGTACACACACAGCAATTTCAGTAAACAGACAAGCAGGGCAGAAATGAGGGGGAGGTATGTGGGGCACGAGGCTCATGTACAATTTTTTTTTTTCAATGTGAACCATTTTTAAAGTCTCTACTGAATTTGTTACAACACTGCTTCTATTTTATGTCTTGGTTTTCTTGACTACCAGACATGTGGGATCCCAGCTTCCCAACCAGGGATCAAACCCACACCCCCTACATTGGAAGGTAAAGTCTTAACCACTGGACCACCAGGGAAGTCCCCTCATGTGAAAATTGGAGGGAGGGGAGTATGCATGCCAAAAATCTCAATAATCAAGACATAATATTTTGATGCAATGCAAAGAAAATTGAATCCACAATCTATAGCCCTTGGGCCAGCTGCCTATTATATTTGAGTGTCCACTTAAACTGTAAGAGCTCCCCAGAAGTATTCTAGCATGGCATAAAAAAAAAATTTTTTTAACCTCTACCTCCGCAGTCGTTTCTGGACTGAAACAAAAGCTTTGCAGTGCAGGACTCATCCTCACTAACCATGAATGCACCTGATATTTTCTAGTCTAGTCTGGTCTCTTCAATGTTATTTTAAAATGCTGCTCACAACTTTTCCAATTCAACTTTGCAGTTTGAAAATGGTGATACTGTCATATGGTCCTGCTTAATTTTTTCTACAGTCTTTTCACTGCCTCCTAATTCCTGCTTGGGCTTCCCTGGTGGCTCAGTGGTAAAGAATCTGCCTGCCAATGCAGAAGACACGGGTTTGATCCCTGATCCAGGAAGATCCCCTGGAGGAAGGCATGGAAATCAACTCCAGTATTCTTGCCTGGAGAATCCCATGGAGAAAGGAGGCTACGGTACATAGGGTCACAAAAGAGTCTGACACGACTTAGGGACTAAAAAAATGACAGCAATAAATTCCTGCTTAGGATTTGTCGGCTTGCCTGTTGCCCATCTTGCCTGCAGAGTGCAGTCCTCTGAGAGCAGGGACCTCATCTTGCTCATCACCGCTGTTGTCCGGCCGCGAGAACGGTGCCTAGCGTGCCGAAGCTGCTCTATCACAGGGGTCCCCAACCTCCAGGATCTAATGCCTGGTCATCCGAGATGGAGCTGATGTAATAATAATAAAAATAAAGTACACAATAAACGTAGTGTGCTTGAATCATTCTGAAACCATCACCACCCCGACCACCACCCTGCCCTAGTCCATGAAAACATTGTCTTCCTTGAAACAGGTCCCTGGTGCCAAAAAGGTTGGAAAGTGAAAGTCTTTCAGTCGTGACCAACTCTGCAACCCCATTGACTGCAGCCTGCCAGGCTTCTCTGTCCGTGGAATTCTACAAGCAAGAATACAGGAGTGGGTTGCTGTTCCCTTCTCCAAGGGATCTTTCAACCCAGGGACTGAACTCCAGTCTCCTGCATTGCAGGAAGATTCTTTAGCATCTGAGCCACACACACACACACACACACACACACACACACACACACACACACACAAACTCCAGGGGATCTTCCAGACCCAGGGATCGAACCCTTGTCTCCTGCTTGATAGGCAGATTCTTTACCACTGAACCACAAAGGAAGCTGCTAAATTCCTGTTGATTGAACGAATGAGTAAGTTGGTCCCTGGGCCCCGCTGCAGACTTCTCTCACTGGCTTGTTTTCCTCCTCCCAG
Seq C2 exon
TTTGCCCCGGGCCCCAGCCTTGTCTGGACACCCTGGCGCTGCCCGGTGTGTGACGCCATGGGCCTGCGGCTCCCGATCCTGCTGCTCCTGCTGTGTTGTGTCTCCGGCCTGCCTTTCTACAATGGCTTCTACTACTCCAACCGTCCCAACGGCCGGAACCTGGGCAACAGCTACAGTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001740:ENSBTAT00000002282:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
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]