DreINT0026398 @ danRer10
Intron Retention
Gene
ENSDARG00000074033 | adamtsl2
Description
ADAMTS-like 2 [Source:ZFIN;Acc:ZDB-GENE-070705-558]
Coordinates
chr5:65212054-65214382:-
Coord C1 exon
chr5:65214212-65214382
Coord A exon
chr5:65212231-65214211
Coord C2 exon
chr5:65212054-65212230
Length
1981 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGG
5' ss Score
7.13
3' ss Seq
GACTTTTTTCTGCCTTCTAGTGC
3' ss Score
9.27
Exon sequences
Seq C1 exon
TGTTCAGGGATCTGTGGTCATGGAAAAACGGTGAGGCATGTGTACTGCAAAACAGCAGAGGGCCGAGTGGTACCCGAGTCTCAGTGCTCACCTGAAAACAAGCCTCTGGCTATTCACCCCTGCGGAGACAATGAATGTGCTCCACACTGGCTGGCCCAGGACTGGGAGAGG
Seq A exon
GTGAGGATTATTCTTGCATTATTCCTAATATTCCTCCAGAAATCATTGGGTACATGGGGTTGGGCGATTAATAGGCCCACACGGAATCTGCGCGCACAGATTTCAGCTGATTTTTAGCCTATCATTGATTCTGTTTATTTACTTGTTTAAATGTGTGTAAATTAATATCAGTAACATTATTGACTAATATGAACATATTTATATGATTTATTTACAATACAGTCTGTAAAGTAATATATATTGTGTGGTTTATTCATAAACTAATTTCGAGAGGATCACGTGCTTATGATCAACACGGCTGGCTCCTCATTAGCTCCGTAATCTGCCCTATTAGATGATTATGGAAGCGTTAGAAATAACCAGAGCTTTTCACTCCAGTTATCTTCGTCTTGAAGTTTCCCCGCTTCCACCCCTACTTCCCCTCTTTTTCCGATAGGGCGACACGGTGGCCCAGTGGCTAGCACTGTTGCCTCACAGCAAGAACACCGCTGGTCCAACCTCCTATCGGGCTGGTTGGTGTTTCTGTGTGGAGTTTACATGTTCTCCCCGTGTTCGCGTGGGTTTCCCCCCGGGTTCCCTGGTTTCCTCCCACCGTCCAAAAACATTAACCATAGCCAATTGACTAAACCAAATTATCACCTAAGACAACCTTAGCTTACACTTCTCACACAGCGGCAAGCAGGAGAGTTCTCGAAACCTACCTGAGCTCAAACTCCCCTCTCGCCCTTCTAACGGGAGGGAGCCCCAGGCTCGGGGATATTACGAGCTCAGGGCTCTCTCCAGGGACAGCATGACAAATACGCTTTATTGATTGTCAGGTAAGTGTGAACTCTTGAACTGTCTTTTAGTAGGTTTTAGTAGGTATATATTAAGGTTTTAGTAATGATACTCCCAAAATAGTTGTGTAAATTTGCAGATTTTTAACAAAATTCTGCGCAGAAACAGCAAAAAATGTCCGCAGATTTCGTTTGCCGTTAGCGATTAATCAAATTGGAATCACAAACACGATTGAGCAAAGTGATTCTCGTGCACGTATTTTCAAGATTTTTAGTAAATCTCTTGCGAAGGCTAGAGGGCGCTCTCACTGAAACCAATGAAAATGCTGAAATATGCATAAATAATAATAAATAATAATGCATTTTATTTAAAGGCGCCTTTCATGACACTCAAGGTCACCGTATAAGACAGCTAGAAGAATCAGTTCAAATAAAAACACAATAAAAGTCAATAGAAAACAATACAATAAAGAAACCCAGGAAATCAATACAATAAAGAAACAATACAATACAGAAACCCTGGAAATCAATACAATAAAGAAACAATACAATAAAGAAACCCTGGAAATCAATACAATAAAGAAACAATACAATAAAAAAAAACCTGGAACTCTTCTGGGAAAAATAGCGTTTTGCTGAATAAACATGGGAAGAAAAGCAAAGTTTTTCGTTTTCTGAGCTGGGATGCTTGCTGTCTATGGGGGATGAGAGAGCTCCTGGATTTCATCTAAAACATCTCAATTGGTTTTCTGAAGATAAACAAAGGTCTCAGGGGCTTGTAACATCATGAGGGTGAATACTTAATTACATTTATTTATTCATTTTCTTGTCGACTTAGTCTCTTAATTAATCTGGGGTCGCTACAGCGGAAAGAATCACCAACTTATCCAGAAAGTTTTTATGCAGCGGATGCCCTTCCAGCCGCAACCCATCTCTGGGAAACATCCACACATACACACACACACTCATACACTATGGACAATTTAGCCTACCCAATTTACCTGTACCGCATATCTTTGGACTGTGGGGGAAACCGGAGTACCCGGAGTAAACCCACACGAACGCAGGGAGAACATGCAAACTCCACACAGAAACGCCAACTGAGCCGAGGTTCGAACCAGCGACCCAGCGACCTTCTTGCTGTGCTACTCACTGCGCCACTGTGTCACCCTTTACTGAATAACAGACTTTTTTCTGCCTTCTAG
Seq C2 exon
TGCAACACAACATGTGGACGGGGTGTGAAGAGAAGGACAGTGCTGTGTGTCAGCATTACAAGTGGGAAGGTCCAGATAAATGAGGATGAGGAATGTGACGCCAGCAAGAGGCCAGCGGATGAGGACACCTGCTTCGAGAGGCCTTGCTTTAAGTGGTACACAACGCCGTGGTCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000074033:ENSDART00000108729:14
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=PD(81.8=78.9),PF0009014=TSP_1=PU(10.7=10.5)
A:
NA
C2:
PF0009014=TSP_1=PD(85.7=81.4),PF0009014=TSP_1=PU(12.0=10.2)
Main Inclusion Isoform:
NA
Other Inclusion 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:
TCAGGGATCTGTGGTCATGGA
R:
CAGACCACGGCGTTGTGTAC
Band lengths:
343-2324
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]