RnoINT0013621 @ rn6
Intron Retention
Gene
ENSRNOG00000027742 | Adamtsl2
Description
ADAMTS-like 2 [Source:RGD Symbol;Acc:1305459]
Coordinates
chr3:5638742-5641040:+
Coord C1 exon
chr3:5638742-5639099
Coord A exon
chr3:5639100-5640670
Coord C2 exon
chr3:5640671-5641040
Length
1571 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
AAACACCTGTCTCTCTGCAGACC
3' ss Score
10.54
Exon sequences
Seq C1 exon
GTGTGGAACCAGAACGGCAAAAGCCCCTCTATCACCTTTGAGTACACGCTGCTGCAGTCGCCACACATGCACCACCTGCCGCCGGTCTATTACAGCTTCTCGGAGGCAGCCTCTGAGAGCACCGAGAGCACCGAGCGCCAGGAGCTGGACAGTGCCAGGCTGCTGGGCTTCCTGCAGCACAATGGCTCACTCTACGGCCAGCCCTCCTCAGAGAGGCTGGGCCTGAACAGCCAGCTGTTTCCGCCTACAGCCCCTGAGGTGGAGCTGGGCCCAAGCAGAGGCCAGGAGACCAACGAGGTGTGCAAGCAAGCCAGCGGTGGGGTCTGTGAGGGACCTCCCAGGGGCAAGGGCTTCCAAG
Seq A exon
GTGAGAAAGAGGAAGAGTGGGTATGGGAAAGGCTTGGGCTCCCCAGGTGCACAGGCCTCAAGTGACAAGGGTTGGTCTTCTTTGAAGTCTGCAGAAGAGGCTAAGGAGAATCCCCAGTTGCTCACACATCTCTCTGGGCAGGCAGAGTGTGAAGTCGGAGCTATAAAGTCACAGTTCAATATCTGCAGATTGACTGTAGGGTCCTCTTGGACACCAAAATTCTCAGCTCCCCAAATCCATGTATACAGTGGTGTACTTGCATAGAACCTTCATTGATCATCACAGCTGACCCCAGTATTAGATGCAGTGTGTGTGCTGTGGGCAGCAATGACCTTAAGTCATGGCAAGGTGACACAGGATGGGACCTGTACATCGATGGATTTGTTTCTTGTCTTGTTGCTTTGACAAAATGCCAACTAAGCAACCCCAGGAGGGAGGTTTCATTTTGGCTCCCAGTCCCAGGAGATACTTTCCGTCACGGCGGCAGGAGCTTGAGGCAGTTGGTCACATTGCATTCGCAGTCAGGAAGCAGAGAGAAAGGAAGCTGGTGCTCTGTCTCCTTTTATACGGGATGGTGCTGCCCACAGGTCTGGTGGGTCTTCCCACCTCATCAACCCAATCTAGATAATTCCTCACAGACAAGTGCAGAAAGCTCGTCTCCTTAGCGTCTCCAGATCCTGTCAAGTTGACAATCGCTATTAACTGTCAAAATCGGTTTAATATAGATGTAGTTCTTCCTCCTCCTTCTCTTTCTTCTCTTCCTTCTCCTCCTCTTCCCCCTCCTTCTCCCCCTCCTGTGAGACTAGAACTTTCTGTGTAAACCAGGCTCGTCTCAAATCCACAGAGATCCATCTGTCCCTGCCTCTGCCTCCCCAATGCCGGGATTAAAGCCATATGCCACCAAACCCAACCAGTATGAAATTCTTTTTCAAAATATTTGGATCCTTCACCCTCTGACTCTTAGGATGTAGACCCCGCATTTGCAGAGGGTGAGCCATACATGGTCGTCCGAATCTGATGGAAGAGAAGGGCTTAGAGAGGAGGTGTTCTGCCAGCTCTTCTCTCCTGTGGTACTGGAAGCCAAGGGCAGCTGGTCCACCCCGTGGTGCACTTGGATAGCACTGGGCCTAATGGATGTCGCTGGGGGCCCTGGGTGTGGCTCACCCATCCTTTTCTCCTGTGTGCTAGACTTCTTGAGGTTTATGTGTCTGTGTCCTCTCTTCCTAGCTAGGCACGAGTCATTTAAGGCTCACCCTAAATCCAGGTTGTATTGTTTCATGAGCCTATAAAGATGCCCTTTCCAAACTAGATCTGATGCAGAGCTTCCGGCTGAGCCTGGGCTTTGGGGACACTGCCCAACCATTTGGCAGTAGCCATTGGGTTTCCTATCATTCGATGATATTGGCCAACTGTGTCTGATGGAGAAGAACCTGGGGGCTTCTGCTCTTTCCCTGTCCCATGGATTCATCCCATACATGCAACTCACCTGTCACACACAAGAATGTGTAGGAGGATAGCACTCCGACCAACACAATAGCTGCATGGCTGTTGAAACACCTGTCTCTCTGCAG
Seq C2 exon
ACCACAATGCCACTGGGAGAGCTCTCTTGGGGGACAAGGATGACCGGGAGATCAGTGCCCATTTCACCTCCCATGAGCTTCTCTCAGCCAACACCATCTCCGATCAGCTCTTGGGCACAGGCTCTGACTCGGAAGAGTTCTCACTCAACGAGACCATGAACAGCATCTTTGCCCAGGGTGCCCCCAGAAGCTCTCCAGCTGAGAGCCTCTATGTGGATTATGAAGAGAATGAGGGGCCTGCTGCCTACTTGATCAATGGGTCTTACCTGGAACTGAACAGTGACAGGATCAATACCTCCTCCGAGGCCCCATTCCCCAACACCAGCGCCAGCCTCCCCAGCTTGGCTGGGAACAGGACTCACAAGGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000027742:ENSRNOT00000036995:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.575 A=NA C2=0.714
Domain overlap (PFAM):
C1:
PF059869=ADAM_spacer1=PD(14.4=14.2)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGCCGGTCTATTACAGCTTC
R:
CTCATGGGAGGTGAAATGGGC
Band lengths:
357-1928
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]