RnoINT0101074 @ rn6
Intron Retention
Gene
ENSRNOG00000000341 | Nid2
Description
nidogen 2 [Source:RGD Symbol;Acc:1311685]
Coordinates
chr15:4895573-4896829:-
Coord C1 exon
chr15:4896672-4896829
Coord A exon
chr15:4895697-4896671
Coord C2 exon
chr15:4895573-4895696
Length
975 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATA
5' ss Score
8.55
3' ss Seq
TCTCTTTGATGTCTTAAAAGGAA
3' ss Score
6.9
Exon sequences
Seq C1 exon
CAACTTGTACTGGACAGACTGGAATAGAGAAGCTCCTAAAATTGAAACATCATCTTTAGATGGTGAAAACAGAAGAATTCTGATCAACAAAGATATTGGATTACCCAATGGATTGACCTTTGACCCCTTCTCCAAACTTCTCTGCTGGGCAGATGCAG
Seq A exon
GTAATACTGGTGATGTGGAAAAGCTAAGCCTGCCTTACGGCAAGCAACGTGAGCACTATTGGGATGTCACTGCAAACCAAGTCTTGCCCAGCTTTTCCATCTGTTGGTCTAAATTTCTGTCAGTACAGAACATACCAGATCTGTAAGCTTTAAAAGGACATTTTACAGTGATTCTTACAGTAAAATTTCCAGGGCTCAGGGAGGCAGCTGGACTGTGTAGCATGTCTGCCCTGACCCCTGACCCCACCTGGAAACTTTTAGATTTGAAGTACTGGCTGCTGTTGACCCTTGGACTATGTAAGACTCTCATTACTTGGTGTGCTGTGATCCTTTTGACAAATGCTGTGAGAGGATGTCTTCCTTCAGGAATGCATTTGGTTAACACGGGGGCTGTCTATGCTGTGGTGTGCTGTGCATTACCAAAAAATCTTAAAGATTGTGTGTGTGTATCTCATTCTACTAAACAAAGTTAGTTTTCAAATTTATGAAATATGTAGCTGGCTGAATATTACATTTTAAAAGGATATATGAAATTCAGTCTTCATAAATATGAAATTTGAAAATTCTTGAAAAATTTAATGTATTACCATGTAAAAATAACCAGTACCATTTTCTTTTTCTTCTACCAAGAATTTATAAGTTTATAAGTATTTTGGCCAGTCCGATGTCTAGACTTAAAATTATAAAAATACTTATCTTTAATGTCATCCTTGGAAAGACACTGATAGAGTTCAATATATTAGATTTTTCCACAAAAAGATTGAAGTTTGAACCTCAAAACCAGAGTTCCGCCATGCCAGGTGGAGATGAATCCTAGGGCAAGACTTAGATGCTAACGTGAACTGCAGTGGGCATATAGTGCCCCGTGTTTAAATTCTCTCTGTTCCCTTGAGAAACACCCTGGCACCTCATTGTTAGCAGTGGTTTGCTTGGGGCATGAAAGGAACTCATTTTCTCTCTTTGATGTCTTAAAAG
Seq C2 exon
GAACCAAAAAACTGGAGTGTACACTACCTGATGGAACTGGACGCCGCGTCATCCAAAACCACCTCAATTACCCCTTCAGTGTTGTCAGTTACGCGGATCACTTCTACCACACGGACTGGCGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000341:ENSRNOT00000000383:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.019 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005812=Ldl_recept_b=WD(100=79.6)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAACTTGTACTGGACAGACTGGA
R:
GCCAGTCCGTGTGGTAGAAGT
Band lengths:
278-1253
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]