DreINT0026403 @ danRer10
Intron Retention
Gene
ENSDARG00000074033 | adamtsl2
Description
ADAMTS-like 2 [Source:ZFIN;Acc:ZDB-GENE-070705-558]
Coordinates
chr5:65237003-65239021:-
Coord C1 exon
chr5:65238876-65239021
Coord A exon
chr5:65237127-65238875
Coord C2 exon
chr5:65237003-65237126
Length
1749 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGG
5' ss Score
6.38
3' ss Seq
GCTGATGTGTAATTTTGCAGCCC
3' ss Score
5.91
Exon sequences
Seq C1 exon
ACGACTACGTTCATATCTCCAGTAATCCGTGTGACCTACACTGCACCACCTCTGATGGTCAAAGACAGCTGATGGTTCCTGCACGTGATGGGACGTCCTGCAAGTACAGCAACTACAGAGGCGTGTGTGTCGACGGCAAATGTGAA
Seq A exon
GTAAGGAGCTGTTTGTCTCTTTCAGCTATGTCTTTTCGGCTTAGTCCCTTTATTAATCTGGGGTTGCCACATCGGAATGAACGGCCAACTTATCCAGCATATGTTTCACGCAGCGGATGCCCTTCCAGCTGATCTCTGGGAAACATCTATACACACTTATTCACACACATACACTACGGACAATTTAGCCTACCCAATTCATCTGTACTGAATTACTTTGGATTGTGGGGGAAACGGGAGCACCCGGAGGAAACCTATACGTGAACGCAGGGAGAACATGCAAACTCCACACAGAAACATCAACTAACCCAGCCTAGGCTCAAACCAGCGACCTACTTGCTCTGAGGCGACAGCACTACTTAAAAAGAAACCAGTTATTAGAAATGAGATTGTAATGTTATTTTGACACTCACTGACATTTTGGCATTGCTTACTGTATATTGATTGTCTCAGACATGTGATGATGTAGATCACAGGTGTCAAACTCAGTTCCAAAAGGGCCGCAGCTCTGCACAGTTTAGTTCCAACCCTAATTAAACACACCTGATCAAACTAATTGAGTCCTTCAGGCTTGTTTGAAACCTAAGTATGTTGGAGCAGGGTTGGAACTAAACTATGCAGGGCTCCGGCCCTCCAGGAATTGAGTTTGACACCCCTGATGTAGATGTATAAGCCAGGGGCGGACTGGGCCCAAAAATCAGCCCTGGCACTGTAGCCACATTACCACACCGACACAGCCCCATACACAGACACGCACATTTACTACTTATATTGGTGTACAGATGGTGAAATAATATAAGCACTACCATATTTAATAGATATTTAAACATTTGATGTATGTGAGTGGAACAAAAACAACCCATTTATAACAAATTTATACATGCAATCATTTCATTCATTCATTTTTTTGTCGGCTTAGTCCCTTTATTAATCTGGGATCGCCACAGCGGAATGAACCGCCAACTTATCCAGCATATGTTTTATGCAGAAGATGCCCTCTAAGCTGCAACCCACTGGGAAACCCCCTACACACGCGCACGCACACACACACACACACACACACACACACACACACACACACACACACATTCATCTACATGCACTACGGACAATTAAGCCTACCCAATTCACCTATAGCACATGTGTTTGGACTTGTCAGGGAAACCAGGAGGAAATCCACCAGAACATGCAAACTCCACACAGAAACACCAACTAACTCAGCCGGGGCTTAAAAAAAACGACCTTCTTGTGCCTCTGCGCTGTGCCCTTTCGACACTATTTCAGTTAATTTTATGCATTTGGCAGCATCTGATTTTAAATATATATATATTTTTTTTTGCTTTCTCTGAGCTTTTCGGCACCACCTTTCCTTTTTTACGGTCCATCTCTGACAATTAGCTTGTGTTGCACTTACTGTTTATTTGACATTCTTGCCAGATTTTGATTACACCTGCGTAACCTCTAATTGGATCAGCCCATCTCGAAACCAGCCGATCTTTGTCGATTGGGCAAATGCTTAACATTTATTATTATTATTATTACTAGTATCATCATCATCATCATAATACTCATATCTCAAAAGAGATAAAAGCTGCCTGCATGTAAAACAATACATATAACAAACATTTTTTTTTTTTTTTAAATAGCTGACCGGCCCACATTTAAAGAATGGTCCGGCCCTTCTGGCATTTGCCAGAATTGCCAGATGGCCAGTCCGCCCCTGGTATAAGCTGATGTGTAATTTTGCAG
Seq C2 exon
CCCATAGGATGTGACGGTGTCCTCTTCTCCCCCAACACCCTGGATAAGTGTGGCGTGTGTCAGGGAGACGGGAGCAGCTGCAGTCGAGTTACTGGGAACTTTCGCCGCGGGGCCTCGAGTCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000074033:ENSDART00000108729:4
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:
PF059869=ADAM_spacer1=PU(11.9=33.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGTTCATATCTCCAGTAATCCGTGT
R:
CTAGACTCGAGGCCCCGC
Band lengths:
263-2012
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]