RnoINT0013305 @ rn6
Intron Retention
Gene
ENSRNOG00000005780 | Adamts13
Description
ADAM metallopeptidase with thrombospondin type 1 motif, 13 [Source:RGD Symbol;Acc:1311594]
Coordinates
chr3:5520380-5522276:+
Coord C1 exon
chr3:5520380-5520449
Coord A exon
chr3:5520450-5522127
Coord C2 exon
chr3:5522128-5522276
Length
1678 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGCT
5' ss Score
6.52
3' ss Seq
GCCTCTTCCTTTCCCCCTAGGCC
3' ss Score
13.63
Exon sequences
Seq C1 exon
AGTTTTCTTCAAGATCTGGAGCCCAAGGACTTATCTTCCTCCTTCAGCCGCCATACTGCTCCACTCACAG
Seq A exon
GTAGCTGTCGTGATGTGCTTGGAGGCAGGGGAGTTTCTTGAGCCCTGGGTGGGGGATGGAGGGAGTTCCCACTGAATCAGAGCCATGAGGGCTCTGGTGGGCATGGAAGGAGGAAGTCAGAGAAGCTTTCTGTCTCTCTCTCTCTCCGTTAATTAGTGTCAGTGCTTCCTGCCAACTTGATAATAGTTGGTGTTCTGGCTGCACTGGAGTCCTGACCCCAGGCTTCTGTTTAGTATCACAAGTGAGGGGGTGTTCATCGGTTGGTCTCCTTAGCCTGTGGATGGCCTCCAGGGGGCTGGCTGATTTTCAGGAACTTGCCACTTCTGGCCATAGCTGTAAATATTTATTCCTTCTTTGGGAACAAGGTGAGTGACAGGCCAAGCAACTCTGGCTCCTGTCCTCCTCATGGTGAAGGCTTTCCCATGACCTACAGCCTTGCCTCTCAGGGTGCCATCGTTTTTCTCAGAGTAACAGTTGGTGGTTTTGATTAAAACCCTGTTTGGGGATCGTCTGTGCAGCCAGATCGCTTGGTAAAGTGCTTCTGTGTGTGGGAACACGAGAGCCCAAGTCCTAGTCCCAGTGTTCATACAGAAAATGCTGGGCAGGTTAGCACACATTTCTAATTCCAGTACTGAAGAGAGGCAGAACCCAGCGTGCATCGTCCCAGGACCACAGAAAAACTGGTCACAAATGGTATAGCTCATAATCCTTTCTATCCTAACCACTAGCCAGGAAAACACATGGGCCATCCAACCCAGCCTAGTTCATGAGCCCCTGGTCTCAGTAAGAGATTTTGTCATAAAAAAACAAGATGGGTGGCTCCTGAGAAACAACATCTGAATTTCATTTCTGGTCTCCACACACACAGATGATTAGGGAATGTCCTCCCACTTACAACCAGTTTTTCTGAGGCCTGAGCAGTGTCTGGATCATTGGGTCCTCTCACCTCTGAGTCCTGAAGGTCTCAGGACACTGATTCCTGGGCTCCTAGGCCTTCGCACTCCACAAGACAGTGAGCATTGAGCTAAATTCCTGAGGTCCAGAGACCAGAGCATCTGTCCTCCTTCCTTTGGCTTGTTTATGAAACAACCACTCCAAGGCTTAGATGACTTTCCCAAGAAATGATCCAGCCCTAGGCAAGGTCCAAAGACTGTAGGCAGCTTGCAGTCCACCCACTCTGGATCCTGAGGATCTTATGGAGGACCCAGTCTGGGCCTGTATTTCGTTTTTTTTTTGAAGATTTATTTACTATGTATACAGCGTTGCACCTGCATGTACACGTGCAGGCCAGAAGAGGGCACCAGATCCCATTACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGAATTGAACTCATGACCTCTGGATGAGCAGACAGTGCTCTTAACCTCTGAGCCGTCTCTCCAGCCCCTCCTCCTTCATTCTTACCAAAGAATCCTGGACTCTCCTCCTGAGCAGGAGATTCCCAGATGGGAGGAGCAGGGGAGAGGGAGGTGGATCCTGTCTCAAGCAAAGCCTCAGTTTACTCCTGTCCACGTCTTCACCAACTCCTCAGGCTGAGAACTGGGCCCTGGGAGTGGACATGAAATCTGCCTTTGGACTGGTCAGCTCCTCTCGGCTATCTCTAAATGCCTGCTTTCTAAAACTTTCATCCTCAGCCTCTTCCTTTCCCCCTAG
Seq C2 exon
GCCATCCTTCCTCTCACCTCCAGAGACTGAGACAGAGGAGGACTTCGGAGGACATTCTGCACCTAGAACTCCTGGTAGCTGTGGGCCCCGATGTTTACCAGGCTCACCAGGAGGACACAGAGCGCTACGTGCTCACCAACCTCAATATC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005780:ENSRNOT00000007640:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.083 A=NA C2=0.120
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0142114=Reprolysin=PU(13.9=58.0)
Main Inclusion Isoform:
NA
Other Inclusion 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:
GTTTTCTTCAAGATCTGGAGCCCA
R:
TTGAGGTTGGTGAGCACGTAG
Band lengths:
214-1892
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]