RnoINT0013675 @ rn6
Intron Retention
Gene
ENSRNOG00000049385 | Adamtsl4
Description
ADAMTS-like 4 [Source:RGD Symbol;Acc:1561012]
Coordinates
chr2:197803584-197804553:-
Coord C1 exon
chr2:197804409-197804553
Coord A exon
chr2:197804270-197804408
Coord C2 exon
chr2:197803584-197804269
Length
139 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
CTATTGACCTCTGTCCTCAGATG
3' ss Score
10.42
Exon sequences
Seq C1 exon
TGTTCTCAATCCTGTCAAGGAGGTGTGCAGACGAGGGAAGTCCAGTGCCTGAGTAGCAACCACACTCTCAGCTCCCGATGTCCTCCGCACCTGCGACCTTCTAGGAAGCGGCCCTGTAACAGCCAACCCTGCAACCAGCGACCAG
Seq A exon
GTAAAGAGCTTCTACCCACCCCAGTGGAGGGGGTTTAGCTGCAATATGGGCAGATATGAGACGGGCTGGTGGGCATGGGTACCACACTTCCAGAGGGACGATGTCAGTCCTGACATGTGCTATTGACCTCTGTCCTCAG
Seq C2 exon
ATGACCAATGCAAGGACAGTTCTCCACATTGCCCCCTGGTGGTACAGGCACGGCTCTGCGTCTACCCCTACTACACAGCTACCTGCTGCCGCTCCTGTGCCCATGTCCTGGAGCAGTCCCAACTGGAGCCTGCTTGAAATGGGTCCAAGAGACCCCTCTCTTATGGTTTTCTCGCGCCACCCATTGAGATAGCCCAAGGAGTGTACCTGTCCGACCTGGGTGTTTGCCCCCTGTGAACGTTTATCACTTCCTCAGAAGCACCCTGAGAAAGAATTAGGAAGTGGACAGGGCTGGCTTCTCTCATGCTTTTCTGGGCTGGGGAGAAAGCAAGGTTATATTTCCACACTAATCTGAGATACATGGAGAGTGTGTGTCCCCAGAAGTTCCAGTTCTGTGCCCCAATCCTCACAACCACGTCAGGCGGCACATCTAACTTATCTTGTTCCTATCCCTGCCTCATCTAGTCTCTGTATTCCTACCACCCAGATTAGCAGGGGTGGGGGTCAGCCACTGCTACCCTACCTTACCCGACCGAGAAGGACCACACCTCTCCAGTGTAGCGATCAGTTGTGTCGTGGGTGGAAATGAGAAACATCAGCATAAGACACCCTAGCCCCAGCCCTCACTTCACACTGAAAATGATGCCCACCCCAGAAGTAATTTATTTTTTATTAAAGTTGATTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000049385:ENSRNOT00000074156:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009014=TSP_1=PD(84.3=87.8)
A:
NA
C2:
PF086866=PLAC=WD(100=71.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCCAGTGCCTGAGTAGCAAC
R:
TTTCAAGCAGGCTCCAGTTGG
Band lengths:
245-384
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]