DreINT0000455 @ danRer10
Intron Retention
Gene
ENSDARG00000063407 | ADAMTSL4
Description
ADAMTS-like 4 [Source:HGNC Symbol;Acc:HGNC:19706]
Coordinates
chr16:1292452-1294474:+
Coord C1 exon
chr16:1292452-1292596
Coord A exon
chr16:1292597-1294191
Coord C2 exon
chr16:1294192-1294474
Length
1595 bp
Sequences
Splice sites
5' ss Seq
AAGGTTAGT
5' ss Score
8.54
3' ss Seq
TCCTGTTTCTCTCTTCGCAGATG
3' ss Score
12.56
Exon sequences
Seq C1 exon
TGCTCTCGCTCCTGTGGTGAAGGGCTCCAGACGCGAGAGTTGCGCTGCCTCACACCTGACAAGCAGCACAGCGCCACCTGCCATCCAGACGCCAGACCTGCACACCAGCAGCCCTGCAACACCATTCCCTGCAGTCCCTTCGAAG
Seq A exon
GTTAGTCTGTGTGTGTGTGTGTGTGTGTATACCCTGTATTCCTTACATTGTGGGAACCAAACGTCCCCACAAGTATAGCAATACCAGTAACTTTGGTCCCCATGAGGAAAACAATTCATAAATGAAGTATTTCGAAAGTATAAAAATGCAGAGTGTTTGCTGTGAGGGTTGAGTTTAGTGTTAGGATTGAAGTAGAGGAGAGATTATACAGTCTCTACAGTGAAAACATCATTACAGCTATGAGAATCCTCATAAAGAAAGCTGTGTGTGTGGGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGGGTTATATTGTAAGCTATTCACTGATAACAACTGATTCAACTAATAACACAGGCTCATCCTGCTGTATATTCTTATATTTATATGCTTATCTGTTACTCTGTTGTTCTTGGCTGTTTGGCGCCATCTTGCGACAGAATGATAATAATAACAGGTAGGTTAGTGTGACCTGCCTTTAGCCGTTTCTCCTCCTGCAAGCTTCACGTTTAATTTTAAAAAGCTGGCTAGTAAACTATTACAGCTCAGATCAATGTTCTGCGTCTTTAATAGTGTAGTATTGTGGCATGTAGTCATGTAATAAGCAGGATAAAGTACATCCAGCCGGTTGTTTTCACATAAATATGCAGGTTAATACTGTCAGGCTTTATTCTGGAAGAACAACCAGCTAGATGTATACTACTCCTTATATAACACCTCTCTCATCCTTTTTCACTACTAAGTGTATTGTTTAGGGATGCAACCCATTTTCACTAAAATATTGCCCCAAAAATTAGGGATGCACTCAATTTTTCTCTGCTGAAAATTCATTCATTCATTTTCCTTCGGCTTAGTCCTTTTATTCATGAGGCGTCACCACAGGGGATTGAACCGCCAACTTACGCAGCATATGTTTCACACAGCGGATGCCCTTCCAGCTGCAACCCAGTACAGGGAAACACCCATGCACACTCACATTCACACACACACTCATACACCATAGCCAATTTAGTTAATCAATTCCCCTATAGCGCATGTGTTTGGACTGTGAGGGCACCCAGAGGAAACCCAAGGGGAGAACATGCAAACTCCACACAGAAACGCCATCTGATCCAGCTGGGACTCGAACCAGCGATCTTCTTGCTGTGAGGCGATCATGCTACCCACTGTGCCACCATGACGCCAGTGTACACCATGGACCAATGTATATTATATGCTGATAGCAACTGTATATATTCATGCATCTATATGTTTATCTGCTGTTCTTGACTGTTTGGCGCCATCTTGTGACTGAATAATAACAATAAAAGGTAGTTTAGTGTAGGTTGCATTCATCCCATTTCTTTCTGCAAGCTTTACATCTAATTAAAGAGCTACTAAACTGTTACAGCTCAGATCAATGTGTTGTGTCTAATAGTGGCAAGTAGTCATGTAATAAGCAGGATAAAGTACATCCAGCCGGTTGTTTTCACAGAATTAAGCTGCTTTATACTGCGATAATAGCCGTCTGGATGTACATGATCCCTTTATTCAGATGATAACCCATTTCTCATCCTGTTTCTCTCTTCGCAG
Seq C2 exon
ATGAGAACTGTAAAGACAGACGGCATAACTGTGTAATGGTGGTTCAGGCTCGGCTCTGCGTCTACTCCTATTACAAGACGGCCTGCTGCGCCTCCTGTACCCAAAGTGCTCAGCGGGCCAAAAGACATTAAGCCTATGCACAGACACGGCCAATCACAGAGCGCTTTACAGTTCTACCAGCCAATCACAGGCAGGTCAGATTCAATTGGAGAGATTTCCAGGTTGAACTGAGCTGAGATCAGCATCCTCTTAAAGGGCCAGTTCACCCACAAATGAAAACGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000063407:ENSDART00000092627:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.020 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009014=TSP_1=PD(84.3=87.8)
A:
NA
C2:
PF086866=PLAC=WD(100=75.0)
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:
CTCTCGCTCCTGTGGTGAAGG
R:
ATCTGACCTGCCTGTGATTGG
Band lengths:
344-1939
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]