DreINT0000461 @ danRer10
Intron Retention
Gene
ENSDARG00000063407 | ADAMTSL4
Description
ADAMTS-like 4 [Source:HGNC Symbol;Acc:HGNC:19706]
Coordinates
chr16:1287204-1289499:+
Coord C1 exon
chr16:1287204-1287408
Coord A exon
chr16:1287409-1289325
Coord C2 exon
chr16:1289326-1289499
Length
1917 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGA
5' ss Score
8.94
3' ss Seq
ATGCGTGTGTTTTCCGACAGTGT
3' ss Score
8.31
Exon sequences
Seq C1 exon
CTGGGATATGGGGGCGTGGTCAGAGTGCAGTGTTTCCTGTGGTTGGGGTGTTCAGCAGCGTCAGATACAGTGCAGGCAGAGCTTTGGGAACCGCTCAACGATGGTCCACCCTCAGCGCTGCGCTGGTCTGAGCCGTCCCAACGCCACGCAGCCCTGCCACCCGCGCGTCTGTTCACACTGGGAGATCAGCACCAACTGGAGCACG
Seq A exon
GTGAGACATACCGCACCAAGCAATTCCTACACATTTATATGATTTCCTTTGTGTAAGTTTAGGGTTGGGGATGAGCAAATCATAGTAAAATTTACGGATATGATTGTACAAATGAATATGAAATGAGGGGCCGATCACACCGAATGTGTTACTCCATCATGAGAATGCAAGCTGCACCACACTGCCTTTTTTGTTGACAAGGCAAAAAGAAGTGCACTAGGCAACTGTAACTCTCCAGTCCTACTGCACACATCCCATTCAATGCTGGGATCCAACCAGCGATTCTTTGGATAGAAGATGGTTGCTCTAATAAGGAGGCTAAAGACCATGGCAGTTGTCACTAGAGCACCTTTTGAGGTCAAAGGAGTGAGGTTAACCCACTTAGCACTTTGCTAGCTGGCCTCTGCTACACTCAACTCCCTAAACCTCACTCCCATCCCGGACGAGCCCCCTCGTGCAACCCACTGGTTCTTCTGCAGCCATCCCATTTTGAGCTGGGACCAAATCAGCGATTCTTTATATGGGAGTCGGTTGTTCTAACAAAGAGGCTAAAGGCCATGGCATTTGTCGCTAGAGCACCTTTTAAGGTCAGAGGTGTGAGGTTTACCCGCAGAGCACTTCGCTAGCTGGCCTCCATTAAACTCAACCCCGTAAACCTCACTCCCATACCAGATGATCCCCTCTCGTGTAACCCACCGATCCTACTGCACCTATCTTGTTTTGAGCTTAGATCTAACCGGCAATTCTTTGCATGGGAGTCGGTTGCTCTAACAAGGAGGCTAAAGACCATGGCCTCTAGCATCTGTCGCTAGAGCACCTTTTGTGGTTAGAGGAGTGAGGGCACTTCGCTAGCTGGCCTCCATTACACTCACCCCCCTAGGCTCACTCCCATCCCGGAAGAGCCCCTACGTGTAACCCACAGGTCCTACTGCACCCATGTCTTTCTGAGCAGGGATCGAACCAGCAATTCTTTGCATGGGAGTCGGTTGCTCTAACAAGGAGGCTAAAGACCATGGCATCTAGCATCTCTAGAGCACAGGTCAGAGGAGCGAGGTTTACCTGCATGGCACTTTGCAAGCTGACCTCAATGACACCCACCCCTCTAAACCTCACTAGCATCCCGGACGAGCCCCCACATGTAACCCACCAGTCCTGCTGCACTCATTCTGTTCCAAGCTGGGATTGAAATGGCGATTCTTTGTATGAGAGGTAGTTGCTCTAACAAGGATGCTAAATACCATGGCCTCTAGCGTCTACGGCTAAATGTAACCCACCAGCCCCCAAATGTAACCCACCAGTATCTATGGCTAGAGCACCTTTTGAGGTCAGAGGAGTGAGGTTTACCCACATAGCCCTTCGCTAGCTAGCCTCCAATACACCCCCCCCCCCCCAAACCTCACACTCATTCCAGACTAGCCTCCAAGTGTACCCCACCAGTCCTACTTCACCCATCCCGTATAGAGCTAGGATCAAACTGGTGATTCTTTGTATGGGAGTTGGTTGGTCTAACAAGGAGGCTAAAGACCATGGCCTCTAGCGTCGTGCACTGGAGCACCTTTTGAGGTCAGAGGAGTGAGGTTTACCTGCATAGAACTTTGCTAGCTGGCCTCAATGACAGTCAACCCTCTAAACCTCACTCCCATCCCGGACGAGCCCCCATATATAACCCACTGGTCCAACTGCACCCATCCCGTTCCAAGCTGGGATTAAAATGCTGATTCTTTGTATGAGAGTTGGTTGTTCTTACAAGGACGCATAAGGCCATGACTCCTAGCGGCTGTTACGAGAGCACATTGGCTCTGCTTTCATTTTTATTGGACAAAGTTACGAGTTTCTGTGTTTGTTTTTGCACAGATAGCATGTGTTCAGGCATATTTTAACTGTTGTAATTGTGCAAATGCGTGTGTTTTCCGACAG
Seq C2 exon
TGTTCGGTGGATTGTGGAATGGGAAAGAGAACCAGGAATGTGCGTTGTGTCAGTAACCACGGCAACACTGTGAATGACCGGGAGTGCAATGACAGGCTCCGCCCACAGCACAGCGAGGACTGTCACATGGGTCCGTGCGTCACCAACTGGTACTTCACTGATTGGACACACACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000063407:ENSDART00000092627:7
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:
PF0009014=TSP_1=WD(100=81.2),PF0009014=TSP_1=PU(13.0=10.1)
A:
NA
C2:
PF0009014=TSP_1=PD(83.3=77.6),PF0009014=TSP_1=PU(12.7=12.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTTCCTGTGGTTGGGGTGTT
R:
AGTGTGTGTCCAATCAGTGAAGT
Band lengths:
348-2265
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]