DreINT0026395 @ danRer10
Intron Retention
Gene
ENSDARG00000074033 | adamtsl2
Description
ADAMTS-like 2 [Source:ZFIN;Acc:ZDB-GENE-070705-558]
Coordinates
chr5:65217930-65219987:-
Coord C1 exon
chr5:65219861-65219987
Coord A exon
chr5:65218144-65219860
Coord C2 exon
chr5:65217930-65218143
Length
1717 bp
Sequences
Splice sites
5' ss Seq
CAGGTCTGT
5' ss Score
6.84
3' ss Seq
TCTGTGCATTTAATATGTAGATG
3' ss Score
6.63
Exon sequences
Seq C1 exon
GTGTGTCAAAATCACTTGCCATGTGTGTGCGGTATGATGGCATCGAGGTGGATGATGTTTACTGTGACGCTTTGACTCGACCTGAGCCGGTTCATGATTTCTGCATTGGTAGAGAATGCCAGCCCAG
Seq A exon
GTCTGTGTGTTAACTTGACGTAAAAAATCTGAAAAACCGTCTTAACTTTAAGGCAACCGCATAATTTTGTTAAGAGTCCCAAATCGGGTCAAGATTTGCTTCTATAATACAAATTTGCAATAACACATAATTTTACACAACATATCCCATCCTAAATTAACACCTAAGTTAACAAACTTTCTGTAAGATGCCCCTGGAACTTTAAGGGGAGGGACAGAAGCAGACAGAATCAGGTTTAAAAACATATACACTTACCAGGCACTTTATTAGGTACACCTTAGTAGTACCAAGTTGAACCCCCTTTTGCCTTCAGACGTGCCTTAATCCTTTGTGGCGTAGATTCAACAAGGTACAGGAAATATTCCTCAGAGATTTTGGTCTATATTGACGTGATATCATCATGCAGTTGCTGCAGATTTGTTGGCTGCACATCCATGATTTAAATCTCCTGTTCCACCACATCCCAAAGGTGGATTCTATTGGATTCAGTGACTGTGGAGGCCATTTGAGTACAGTGAACTCATTGTCATGTGCAAGTAACCAGTCTGGGATGATTTGTGCTTAAGGACATGGTGCATTGTCAGAAGATGGATACATTGTGATCATAAAGGGATGGACATGGTCAGCAACAATACTCAGGTAGGCTGTGGTGTTAACACGATGCTCAATTGGTACTAATGGGCCTAAAGTGTGCCAAGAAAATATCCCCCAAACCATTACACCACCACCAGCAGCAGCCTGAGCCGTTGATACAAGGCAGGATGGATTCATGCTTTCATGTTGTTGATGCCAAATTCTGACCCGACCATCCAAATGTCGCTGCAGAATTCGAGACTCATCAGACAAGGCAACATTTTCCCAATCAACTATTGTCCAATTTTGGTGAACGTGTGAATTGTAGCCTCAGTTTCCAATTCTTAGCTGACAGGAGTTGCTCCTGGTGTGGTCTTCTGCTACTGTAGCCCATCCGCCTCAAGGTTGGACATGCTGTGTATTCAGAGATGCTCTTCTGCAGACCTCGGCTGTAACGAGTGCTTATTTGAGTTACTATTGCCTTTCTATTAGCTCGAATCAGTCTGGCTATTCTCCTCTGACCTCTGGCATCAACAAGGCATTTGCGCCCACAGAACTGCCGCTCACTGGATATTTTCTCTTTTTCGAACCATTCTCTGTAAACCCTAGAGATGGTTGTGTGTGAAAATCCCAGTAGATCAGCAGTTTCTGAAATACTCAACACAACAATGCCACATTGAAAGTCACTTAAATCACCTTTCTTCCTCATTCTGATGCTCGGTTTGAACTGCAGCAGATCGTCTTGACCATGTCTACATGCCTAAATGCACTCAGTTGATGCCATGTGATTGGCTGATTAGAAATTTGCCCTAACGAGCAGTTAGACAGGTGTACCTAATAAAGTGGCCGGTGAGTGTATGTATTGTTTCGCAAATCTTTTGATTATTGGCCATGTTTCAATGTTTTTACTGTTTTTAATTATTCTAATTTGTTCCTTAATTTTTTTTAAAACTGTGGCCAAAATAGTGCAATGTGGCTACTTAAAACAAGGGATTATTATTGTTACAATACAGTGGAAATGATAAGAAAGACAAAAGAAAATCAAAACATAAACTGAAAACTCCTGTCATTTATGTTCTCTCATGCCATTATAGTCAGGTCCCATGAAAAGTGACACAACCCTCTCTGTGCATTTAATATGTAG
Seq C2 exon
ATGGGAGGCGAGCAGCTGGAGTGAGTGCTCTCGGACCTGTGGGGAAGGTTTTCAGTTTCGGCTGGTGCGCTGCTGGAAGATGCTGGCCCCTGGACTCGACAGCTCGGTGTACAGTGACCTCTGTACTGAAGCGCAGCTCGAGCGGCCTCCAGAGCGCCGGGCCTGCAAGAGCCCCACCTGCGGCCCACAGTGGGAGGTAGCCGAGTGGTCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000074033:ENSDART00000108729:11
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:
NO
A:
NA
C2:
PF0009014=TSP_1=WD(100=83.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAATCACTTGCCATGTGTGTGC
R:
CTCAGACCACTCGGCTACCTC
Band lengths:
334-2051
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]