DreINT0026394 @ danRer10
Intron Retention
Gene
ENSDARG00000074033 | adamtsl2
Description
ADAMTS-like 2 [Source:ZFIN;Acc:ZDB-GENE-070705-558]
Coordinates
chr5:65219861-65221924:-
Coord C1 exon
chr5:65221824-65221924
Coord A exon
chr5:65219988-65221823
Coord C2 exon
chr5:65219861-65219987
Length
1836 bp
Sequences
Splice sites
5' ss Seq
TTGGTAATC
5' ss Score
3.39
3' ss Seq
CAGTACTCTTTCTCAAACAGGTG
3' ss Score
8.75
Exon sequences
Seq C1 exon
GAATAACCATAGGCTCCTTCAGAAGAACAAACCAAGCGCTGCTGACATGTACCGGTGGAAGTTGTCCACACAGGAGCCCTGCAGTATGACATGCTCCATTG
Seq A exon
GTAATCATTAACTTTTGCATTTAGTCAATTAGTAGATGGTTTCCAGCTTAAACAAATGAAGGATCAAGCTCATAAAGAGGCAAAACTTAAATGAATGCAACATAATCTCATTCTGAAAACGTAGCCCTATATACATTTCTGAAGATCTCGAATTATGTAGCCTGAGGAACGCATGGCTGCATTTCATCTAAGGGCGGTATGAAGTGGTTTCTTTTCACGCTTACAAGCTTACTGCTCGTCTCCATGTGGCTTTCCTGCTGTTACCAGTTTGACCAGTGGCTCGCCATGTATGTCTGTGGACTTGAGACGCAGAGAGTAGTGGACTATGACAATGGAGTTCGAGTCTGGCGAAAAACGGTTCCAAAAGCAGGCAAAACAGAAACCCCTTTCACACAATGATATGTGACATGAATGCGTCTGAGTGTTCTGATTGGCTAAAGTAGACGTCTCACGTCAGCACGTTCTAGACGTGAACGTGCTCTTTCTGGCAATTTTCCTTCTGCGTTCACACAGCGCAGCATTCCGACAAATTACCGGTAATGTTACAACTTCTCTTTCCTGAAAATAGCCGCAACGAATTTACATGCATTTTCAAAAAGGACCTGTTCACATATACAGACCTTTCTGTGGTAAGAAGAGGTCTGTACAGGTCTGTATGTGTGAAAGGGGCTAAAAACAGAAGCCAAAAAATCGAATAAACTAGTAAGATAACAGGGTAAGAATGTGGTAAAATCTGAAAATCGTGGGAGAAATTTGAGATCTCAAAAAGCATACACAGCGCTCCTCGGTGGATTTACAAAAACTGCCAAAAAAAGCGTAGCTACTGGGACGTATTTGGCGCTCTCCAGAAATGTATATAGGGATACGTTTTCAGGATGAGCCTGGGTTGAATTAATGCTACTAATACAATAATACAATACTTTCTGTTCTCCCTTATGATAACCACAACAAAGGCGAAAGCACACAAATTAATCAAAACAAAAGGAAGGATGTTTAAAGGTATAGTTATATCTGAACAATTTTAATTAATTTACTCAGCTTTTACTTGTTCTTTCTTTCTTCTATTGAACACAAAAGAAGATACATGTATTTTTAAAAATGTTGGTAGCCATTCCCGTACCTATTCCCCATTCATTGCATTCCATTGCCATTTCCCTAACCTGATTTCACCAAGTAGGACATGTTCCTGGATAAACATCTATGTTTGATCCTCGAACAACATTCCAATCAGCCAATCAGAATTAAGGCATACGTTTACAGTTTAGGCTTACAGTTAGGTTTATGCACTTCTACATGATTGTTATCCTAATATTTCTCTCTGATTTTGGGTATGATGGTCATTTGGGCCCCTAATAATATCTTTGGGGGCCCCAAAAATGTGTCGTCCTATGTGAGTGTGTATGTGAATGTGTAGATGTTTCCCAGAGATGGGTTGCAGCTGGAAGGGCATCCGCTGCATAAGTTGGCGGTTCATTCTGCTGTGCCGACCCCGAATTAATAAAGGGACTAAGCCGACAAGAAAATGAATGAATGAATGAAGTTATTTTACAGAATGTTAGAAAGCAGCAGCCATTGACATCCATAGTAGAAACATAAAGTGCTAAGTCAATGGGTGCTAATTTCCAACATTCTTTAAAGTATCCTAAGTTGTGTTCAACAGAAGAAAGAAACTCAAAACGGTTTGAAACAAGTGAAAGATGAGTAAACTATTACAAAGGTAAACTATCACTTTAATCGATTGCTTGTAATTCAGCAAACAGCCACACGTGGACATTCCTGACAACTATGCTTGTTTATGCGGTGAACTTTTTTAACGCAGTACTCTTTCTCAAACAG
Seq C2 exon
GTGTGTCAAAATCACTTGCCATGTGTGTGCGGTATGATGGCATCGAGGTGGATGATGTTTACTGTGACGCTTTGACTCGACCTGAGCCGGTTCATGATTTCTGCATTGGTAGAGAATGCCAGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000074033:ENSDART00000108729:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.171 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCATAGGCTCCTTCAGAAGA
R:
TGGGCTGGCATTCTCTACCAA
Band lengths:
222-2058
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]