RnoINT0013672 @ rn6
Intron Retention
Gene
ENSRNOG00000049385 | Adamtsl4
Description
ADAMTS-like 4 [Source:RGD Symbol;Acc:1561012]
Coordinates
chr2:197805106-197806833:-
Coord C1 exon
chr2:197806657-197806833
Coord A exon
chr2:197805304-197806656
Coord C2 exon
chr2:197805106-197805303
Length
1353 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGT
5' ss Score
8.23
3' ss Seq
GCCACTCTCCCTCCCAACAGTGC
3' ss Score
10.44
Exon sequences
Seq C1 exon
TGCTCTGTGCGCTGTGGTCGTGGTCAGAGGAGCCGGCAAGTGCGGTGTGTTGGAAGTAATGGCCATGAGGTGGGCAAGCAGGAGTGTGCTTCCGGGCCCCCGCCACCTCCCAGCAGAGAGGCCTGTGACATGGGCCCCTGTACCACAGCCTGGTTCTACAGTGACTGGAGTTCCAAG
Seq A exon
GTGGGTCCTGTACTTCTGGCAAATCTGCCTTCCCTGGTGACTGCACCCCAGGCCATGCTGTCACAGCCTGTCCAGCACAGCCTCCATGAACTTCTTCGTTCTTGACCTAAGGACTCAGGGATAAGTGGGGTTTTCCCACTTATTCATACCCATAGTTTTAGTACTTGGGAGGCTGGGCCAGCCTGGGCTACATAGTGAGTTCCAGGTCATATGAGCTGCAGTAAAACCTTTATGTTCTGTTTTGGCTTTTTGAGACAGGTTTCTCTGTGTAAGCTGGCTGCTCTGTAGAGCAGGCTGGCCTCAAACTCACAGAGGTTTCCCTCCCTCTGTCTCCCTAGTGCTGGACTAAAGGTGTGCACCCCTCCCTCTCCCCCTTCAATCTGTCTTTAAAAAAGCAAACGCAGTCTGGGCATGGCAGTACTTTTATTCCCAGTTAAGGCAGAAGGATCTCTGTGAGTTTGAGTTCTAGGCTAGCCAGGGCTACAAAAAGTGACCCTGCCTCAAAAAGCCACTACCAACAAAAATCTAACCAACCAACCAACCAACCACCCAGACAAAAAAGAAAAAGGAAAAAATGGGCTGTAGTTATGGGCACTTCCTGTTTTCCCAGCATTCAGTTCTCAGAACCCACTGGTAACTCCAGTTCCAGGAGATCTGGTACCCTTCTGGCAGACACACACACACACACACACACACACACACACACACAAAATAGCAAAGTAAAACAGAGCAGGGGACTGGCTCAGTAAGTGAAACTCCTTTCGTGGTCGGCCTGACAATCTAAGTGAGGTCCCTGGATCCCGTGGTAGAAGGAGAGAACCGACCCTTGTGTACCTGCACAAACACATATAGGCTGGCCTCGAGGCACACACCTTTAATCCCACTACTCCAGAGGCAGAAGCAGGAGGATCTCTCTGAGTCTGAGGCCAGCCTGGTCCACACAGCCAGCACCAGGATGACTAGAGCTACAAAAAGAGACTCTGTCTCAAAAAGAATCCTACATACAGAAACAATAGGCTTCATACAAATCAGCAAGGTGTGGTGTAGCTCCCTCCGCTGGGGTGTGCTTGTCTAGCATGTGTGAGGCCCTACTTTTGCTCCTCAGTAATACATAAACCAGGTGTACGACACACTTGTAACCCCAGCACCCAAGAGGTAGAAGCAAGAGGACCAGAAATTTAAGTATCTCGTCTTTATACCAAGTTCAAGAACAGACTGGAACCCAGCTGTCTGTCTCTTCTCACAGGCTGGTACCCCGGGGTCATTCCTGAACTCTGGGGATTTGGGGCCTCCCCACTTCAGGTCCAGTCACCAGCAGCCTCCCTATATACAGGCCACTCTCCCTCCCAACAG
Seq C2 exon
TGCTCAGCCGAGTGTGGGACAGGCATCCAGAGACGCGCTGTGGTCTGCCTTAGGAGTGGGGAGACCCTTCAGGGGGACCCAGAAGCAGGAAGCACTGAGCAGGGTTGCCCTCTCAGAAGCCGCCCTCCTGACATGCGTGCTTGCAGTTTAGGGCCCTGTGAAAAGACATGGCGCTGGTACACCGGGCCCTGGAGTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000049385:ENSRNOT00000074156:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.102 A=NA C2=0.167
Domain overlap (PFAM):
C1:
PF0009014=TSP_1=PD(83.6=78.0)
A:
NA
C2:
PF0009014=TSP_1=PU(10.7=9.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTGGTCGTGGTCAGAGGAG
R:
GTGTACCAGCGCCATGTCTTT
Band lengths:
348-1701
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]