RnoINT0013674 @ rn6
Intron Retention
Gene
ENSRNOG00000049385 | Adamtsl4
Description
ADAMTS-like 4 [Source:RGD Symbol;Acc:1561012]
Coordinates
chr2:197804409-197805005:-
Coord C1 exon
chr2:197804826-197805005
Coord A exon
chr2:197804554-197804825
Coord C2 exon
chr2:197804409-197804553
Length
272 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
3' ss Seq
GATGGCTATGGTCTCCCCAGTGT
3' ss Score
5.66
Exon sequences
Seq C1 exon
TGCTCCTCTGAGTGTGGGTCTGGCACACAGCACAGAGACATTATCTGTGTATCCAAACTGGGGACCAAATTCAATGTGACTTCTCCCAGCAACTGCTCCCACCTACCCAGGCCTCCTGCCCTGCAGCCCTGTCAGGGCCAGGCCTGTGAGGACCAATGGTTCTCTACTCTCTGGAGTCCG
Seq A exon
GTGAGTGCCTGGCGTCCTTGCCTTGCTCTCCTTGGGCCTCTAGCAGAGAGGCCTGGACTCAGCCAAGCCCCTTTCAGCCCAGGACAACCCAGCTGGGCTTTTGTGTTGTCCCACTTCCTGTAGACCTGGAGGACTAGGGAACCCTCTCCATTTGGGATTTTATAATGTCCCTGGATAATGCTCCACCGCAGTCCTTCAGAGAGGAAGGTGGTGTCCTGGGTAGCAGCCCTGAGAACTTTAGACATATGATCTGATGGCTATGGTCTCCCCAG
Seq C2 exon
TGTTCTCAATCCTGTCAAGGAGGTGTGCAGACGAGGGAAGTCCAGTGCCTGAGTAGCAACCACACTCTCAGCTCCCGATGTCCTCCGCACCTGCGACCTTCTAGGAAGCGGCCCTGTAACAGCCAACCCTGCAACCAGCGACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000049385:ENSRNOT00000074156:16
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(85.7=80.0),PF0009014=TSP_1=PU(11.8=10.0)
A:
NA
C2:
PF0009014=TSP_1=PD(84.3=87.8)
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:
CTCCTCTGAGTGTGGGTCTGG
R:
TTACAGGGCCGCTTCCTAGAA
Band lengths:
297-569
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]