RnoINT0101068 @ rn6
Intron Retention
Gene
ENSRNOG00000000341 | Nid2
Description
nidogen 2 [Source:RGD Symbol;Acc:1311685]
Coordinates
chr15:4905300-4906433:-
Coord C1 exon
chr15:4906314-4906433
Coord A exon
chr15:4905549-4906313
Coord C2 exon
chr15:4905300-4905548
Length
765 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
CTCCTTCATGTCTCCCTCAGACA
3' ss Score
9.07
Exon sequences
Seq C1 exon
ATGTTGACGAATGTGCGGAAAACAGATGTCATGGGGCAGCCATCTGTTACAATACCCCCGGGTCCTTCTCCTGCCGGTGCCAGCCTGGGTACCACGGGGACGGGTTTCACTGCGCCTCTG
Seq A exon
GTAAGTATGGAAGACCTGATTAAGCTCAGGGATTTCCCAGCTCTTTCCCTCATAGTTTCCTCCCTGCTCAAGACGGAACCTGGTCTGAGGCCCGGAATGGGGGCTTTCCAAGCTCTGCATTCTCCTCAGTAGCCTCTTGACGGCCACTTACTGCTGGTTGCGTTGTGAGCTTGCAGTTCTGCCATTCACCCCGTGGCTGCTCTGGTTCTACCGCCTGAGTGATCTACTTTGCTGAGTGGTGTTTGGAAAGACCATCGAGGAGGAGCTTACTCAGTAGGAGCCTCCTGTACTAAGGAGCCAGAAGTCAGCGCACGTGGCGACTGCTTCTGTAGAGCTTGGCCAGCATACAGTAATGTGCCTGCTATTGCCCTGGGCTTCTCAGACTTAGACTCTGGGTCCCAAAGAGTGGATGGAATTAACCTGTCATCTCCAGAGTCTCCCAGAATGCTGGGAAGTTTATTCTTCATTTTGCCCAGATGTCAGTAGGTCCCCAAGGCTGAGGGGCAAACTGGGCTAGCTCATGTTTATATTCATGTAGGGATGTACGGGGAAATGGAGGGAAATCATAACAACTAGATGGATGGTACCAAAGCCAAAATAAGAACTCAGGAGTCTAAAATGTTAGTGTCTTACTAAACAGTAACTGAGAAACCTCAGTGTCATGGTAACTTCGAATTGCACGGAAGAAATGCTCTCTACAGAAGACTTTATGGGGAACTGGCTAGTGAGGACGGGTGGTGTATTTCTCCTTCATGTCTCCCTCAG
Seq C2 exon
ACACAGTTCCAGAAGATTCCATCTCAGGACTGAAACCCTGTGAATACCAGCAGCGCTATGCCCAGGCACAGCATGCCCACGCTGGGTCACGGATCCACATCCCCCAGTGCGACGACCAGGGAAACTTTGTGCCGCTGCAGTGCCATGGCAGCACTGGCTTCTGCTGGTGTGTGGACCAAAATGGCCATGAAGTCCCTGGCACCCAGACTCCACCTGGCTCCACTCCGCCCCACTGTGGACCACCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000341:ENSRNOT00000000383:12
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=0.238
Domain overlap (PFAM):
C1:
PF0764510=EGF_CA=WD(100=92.7)
A:
NA
C2:
PF0008613=Thyroglobulin_1=WD(100=78.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAACAGATGTCATGGGGCAGC
R:
GAGGTGGTCCACAGTGGGG
Band lengths:
347-1112
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]