RnoINT0011750 @ rn6
Intron Retention
Gene
ENSRNOG00000028992 | Acan
Description
aggrecan [Source:RGD Symbol;Acc:68358]
Coordinates
chr1:140822699-140823828:+
Coord C1 exon
chr1:140822699-140822843
Coord A exon
chr1:140822844-140823645
Coord C2 exon
chr1:140823646-140823828
Length
802 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
AAAAGGCATTTGTTCCTCAGTGG
3' ss Score
2.97
Exon sequences
Seq C1 exon
CAATTTGAGAAGTGGCGTCCAAACCAACCCGACAATTTCTTTGCCACTGGAGAGGACTGCGTAGTGATGATCTGGCATGAGAGGGGTGAATGGAACGATGTCCCCTGCAATTACCAGCTGCCCTTCACATGTAAAAAGGGCACAG
Seq A exon
GTAAGAAAGGCTTGGGAGGAGATCCAGGGGGAGGAATAAGACCTCCAACTGCATGGAAGCCTCTCACTATGCGACCTGAGGCGAGTTTCTTGTCTCCTAGCTACTGGGAGCTATGGGAGCATCCTCAAGAGGCACATGGGTGCTGATGTGAGGGCCTCTCGTGGCACAGTGTCATGGGACTAAGAACATGGTGATTCCTGGAGACCTTTCACAGGGAGAGTCCTAGGATCCTCAACACCATGCATATGTCAGTCCCTCAGAGTCAGCAACAGAAAGTCACCCATAATGACCCCTGCGGGGACCACCCTTTCTTTGGGGCTCCAAAATTGCTAGTCACAGAATCAAGCCATCAGGCCTGGGTACTTCAACTTTAAGGCCGTGGGCATCGTAACACTTAGAGAACCTGGCCTAGTGCTCCCATTCAGTCTGTGTCATCAGGCCTCCTTTGGGCCCCACTTTCCCTAGCTTTAGACATTTTCATAAAGATGTCACAGATGTCTTACCACACAGTCCTCTTTCCCTGTCTTCCTTCCTTTTCCTTTTTATCTTCCCCCCATTGTTCAAGGCCACTTTCTTATCCCCTTCCTGCTTCCCAGAGCCACCAAGAAATTGGGATGTTAGAACTGAATAGCTCAGGATTCTCAGCCCTGCATTTTCCCAGCAGTCCAGACTCAGTCCTGGGTAGCACAGGCTAATCCCTTTCTCATCATACCGTGAGCTCTGAGATAACCTTGTCTCTGCCTACATAGACCATCACAGAAACTTTCATGAGGCCCCTTCCTAAAAGGCATTTGTTCCTCAG
Seq C2 exon
TGGCCTGTGGAGAACCCCCAGCGGTGGAGCATGCCAGAACCCTTGGGCAGAAGAAAGATCGCTATGAGATCAGCTCCCTGGTGCGGTACCAGTGTACTGAGGGCTTTGTCCAGCGCCATGTGCCCACCATCCGGTGTCAGCCCAGTGGGCACTGGGAAGAGCCTCGAATCACTTGCACAGACC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000028992:ENSRNOT00000047848:18
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=0.177
Domain overlap (PFAM):
C1:
PF0005916=Lectin_C=PD(42.5=91.8)
A:
NA
C2:
PF0008415=Sushi=WD(100=91.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAATTTGAGAAGTGGCGTCCA
R:
TCTGTGCAAGTGATTCGAGGC
Band lengths:
326-1128
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]