BtaINT0014392 @ bosTau6
Intron Retention
Gene
ENSBTAG00000003604 | ADAMTSL4
Description
Bos taurus ADAMTS-like 4 (ADAMTSL4), mRNA. [Source:RefSeq mRNA;Acc:NM_001101061]
Coordinates
chr3:20187039-20188197:-
Coord C1 exon
chr3:20188053-20188197
Coord A exon
chr3:20187903-20188052
Coord C2 exon
chr3:20187039-20187902
Length
150 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAAG
5' ss Score
5.75
3' ss Seq
ATGGCCTCCTCTGTCCCCAGATG
3' ss Score
11.56
Exon sequences
Seq C1 exon
TGTTCTCGCTCCTGCCAGGGTGGCGTGCAGACAAGGGAGGTCCAGTGCCTGACTGCCAACCAGACCCTCAGCATCCGATGCCCTCTTCACCTGCGGCCCGCCAGGAAACGATCCTGTAACAGCCAGCCCTGCAGCCAGCGCCCTG
Seq A exon
GTAAAGAGCTCCCTCTCCCCCATCCCCAGTAGAGTGGATTTAGCTGAAGTGTGGGTGGAGATTAGGAAGGACAATTGGGAGTGGGCAGCACGCCTCCAGCGGGATGGATCTTGGTGACTTCTTGTGCCCAATGGCCTCCTCTGTCCCCAG
Seq C2 exon
ATGATCAATGCAAGGACAGCTCTCCACACTGCCCCCTGGTGGTGCAGGCCCGGCTCTGCGTCTATCCCTACTACACAGCCACCTGTTGCCGCTCTTGTGCCCATGTCCTGGAGCGGTCTTCCCCAGAGCCCGCCTGAAATGGGTCCAGGAGACCCTCTCCTTGTGGTTTTCTCATCAGTCACCCACCATCAGTCACCCCTCAATCACCCCACTCTGTATCCTCTGGCTCTCCAGCCTGTCCTGGTCTTACTAGAGACGTCCCCCAGGGTGATGGAAGTTGGCAAGATGATGGACAGTGATCATCAAGATGTGTGGCTGGGTCTGTGCCCGTGTGGCGGTGTGATGGTGTGTGTGCACACATGCACCCAAATGTGTATGGGCCCGTATGGATGTGTGTGCACCCATACATCTGTATCACTTCTCAAAAAGAAGTTACACAATCCCCCAGGAGGGGATGATGCCTGTTTCCCAGAGAGTTTTCTGGGCTGAGAGGAAAGCAAGTTTGCAGCTCTTTGGGAATCCGAGCTACTTAGAGTCTGGCCTCCACATTAATCCCAATTTTGTGTCCTAACCCTCATTTTTCCTGTTCAGGCCACGTATCATCTAAACCTTCCTTCTGTCCTCTGACCCCTTCTCCCTTTACCTAGTCTCTATCCCTCCCTCTCATAGCTAATGAGGGGTGGGGGTGAGCGCTTGCCCTCCAGGAAGAGAGACTGACCCCCAGAGCAGAGACCAGCTGGGCAGAGGATGGAAAAGAGCAAGTTTAGAACAAGACATCCTAGCCCCTGCTTCTACTCCCCACCTCCTAAAATGGTTCCTACTCCAGAACTAATTTATTTTTATTAAAGATGATTATGACAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003604:ENSBTAT00000004686:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.044
Domain overlap (PFAM):
C1:
PF0009014=TSP_1=PD(84.3=87.8)
A:
NA
C2:
PF086866=PLAC=WD(100=71.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACGATCCTGTAACAGCCAGC
R:
GGGTGATTGAGGGGTGACTGA
Band lengths:
248-398
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]