BtaINT0012516 @ bosTau6
Intron Retention
Gene
ENSBTAG00000016158 | ACAN
Description
aggrecan [Source:HGNC Symbol;Acc:HGNC:319]
Coordinates
chr21:20833151-20834756:+
Coord C1 exon
chr21:20833151-20833325
Coord A exon
chr21:20833326-20834628
Coord C2 exon
chr21:20834629-20834756
Length
1303 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
CTGCCTTGGGTTCCCGGTAGGTA
3' ss Score
8.57
Exon sequences
Seq C1 exon
GCATCGTGTTCCATTACAGAGCCATCTCCACGCGCTACACCCTGGACTTTGACAGGGCGCAGCGGGCCTGCCTGCAGAACAGCGCCATCATCGCCACGCCCGAGCAGCTGCAGGCTGCCTATGAGGACGGCTTCCACCAGTGCGACGCCGGCTGGCTGGCCGATCAGACTGTGAG
Seq A exon
GTGAGCCCCGGGGCCACCATCGGAGTGGAGTGGGAGACGGACTGGAACGCCGACCAGCACTGAGCTGGTGCCAGCCTGATGACACCAAGGCCAGCCTGGGCTGGGGCTAGACAGATGCCTTGGCCAGTTCGAGGTCAGGTCCCAAATCCTTGGTCCTCTGTCCTGTGGTGGATGAGTGATCACTAGCAGCATAGCTCTACGTGAGCATTTTCTCCATGCAAATTATACATCATTATTCTTCCTACTCATTTTTCCCTTTACATCTTTTTTAAATTTTGGTGTTTACATATTTTTGTGAACCACTTTCTATTCTGTTTTTAATAGGGCAAGACACATGTAAATTAAGCTTTTTGGTTCATTTTTCCCTGAGCACAGCTGCTAAGGAATGGGTGGGTTGCCCAGCAAGACAGACAGAGCCTTAGAGGGCAATCATGTGAGCAAGCCTGTAAAAGCAAGATGAGACAATTCATTCGAGGTGGATCAAAGCTCCAAATGCAAAAGCCAGAACCACAAAGCCACAAGAAGAAAACAAAGGGAAATAGCTCTGTAATCTTGGGATAGGCAAAAGATCTCAGGATAAAAAAAGCCATTAACCATTAAAAAAAAAAAAAAAAAAAGGGCAAGGTGATTCAACAGCCTAGCATAGTGCAAGAGACCACACCTCAGATACAAGAGGTACTTATATACCTCAAACCCCAGTTTTGATACTTAGAGGCTGTGTGACCTTGAACAAGTTGCTTAACATCTCTGGCCCCCACTTTCTTATAGTTTAGAGTGGTTATAGCACTTTCCTTCTTAGGTTGATGTGAGACTCCAATGATACAGAGCAAAGTTCAGCAAACTATGGCTTATGGGTCAAGTCCAACCCACTCCTTGATTCTGTAAACAAAGTTTTATGGGAACACAGCCCCGCTTGTTATTTTGTCTGTGGTTGCTTCGTTTGCACTAGGATGGCAAGGTTGAGTGGTGGGTCACAGTGGAGACCCTCTGGCCTGCAAGACCTGAAACATTTACTGTCCATCCTTTTACAGAAAAGGTTTGCAAGCCCCTGATAGAACATGTTTGGTACCAATAAATATTTAGTAAAAGGCGCCGCTTTCTGTCACCAATAGTGATGAAAACCTCCATCTCAATAAAGCTGGGAAAAATCTGTAGAAACAAGTAGCCCACAGATCTCAGCAGATCCCAGCAAACACATCAGTAAGTCACCGCTTCCTCCCACAAGGGAGGAGGGTACAAGGACACAGGTCACCGGGCCCCTCCGTCCCCCGAGTGTCACATCCCTGCCTTGGGTTCCCGGTAG
Seq C2 exon
GTATCCCATCCACACGCCGAGGGAAGGTTGCTATGGAGACAAGGACGAGTTTCCCGGCGTGAGAACCTACGGCATCCGGGACACCAACGAAACCTATGACGTGTACTGCTTCGCGGAGGAGATGGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016158:ENSBTAT00000021512:4
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:
PF0019312=Xlink=PU(60.4=98.3)
A:
NA
C2:
PF0019312=Xlink=PD(38.5=84.1),PF0019312=Xlink=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCATCGTGTTCCATTACAGAGC
R:
CCTCCATCTCCTCCGCGAAG
Band lengths:
303-1606
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]