RnoINT0101071 @ rn6
Intron Retention
Gene
ENSRNOG00000000341 | Nid2
Description
nidogen 2 [Source:RGD Symbol;Acc:1311685]
Coordinates
chr15:4899128-4901338:-
Coord C1 exon
chr15:4901169-4901338
Coord A exon
chr15:4899258-4901168
Coord C2 exon
chr15:4899128-4899257
Length
1911 bp
Sequences
Splice sites
5' ss Seq
CATGTAAAC
5' ss Score
-0.59
3' ss Seq
ATATCACCATTGGTCCTTAGGGC
3' ss Score
7.13
Exon sequences
Seq C1 exon
GCATACCCACTGTCGCCCCACCCGTGGTCCGGCCCACACCCCGGCCTGATGTGACTCCTCCGGCTGTGGGCACCTTCCTGCTCTATGCCCAGGGCCAGCAGATCGGTCACTTGCCCCTCAATGGCAGCAGGCTTCAGAAGGATGCAGCCAGGACCCTGCTGTCACTACAT
Seq A exon
GTAAACTGGGTTTCTCCAGGGGGGCTGGGCTCCATGGGGAGTGTGGTCTTGGGATGAGGGTGAGCCTGCAGGCTGGGCTTGTGGTTGTGGGCCTGGGGGAACTGCACTTTGTGGTTTCCAGGGGGAAGTGCAGTGCAGGGGACCCTGGCATGCTTCTGGGCTTCCGTCTGCTTTAGTGGGGCTTAGTTGGTGGAAACCATGTCTGGCCCATTCTAGCCGCTGTACCCTGAGAGCGTCACGGGAGTGCAGATAGCCAATGAATTTCAGAGCTGTTGTCTGTTTGTGGGAAGATCATTGTCACCTCAGGTTCCTGGGGGGGTTCTGTTCAGGTCGAAGACATTTGGAAGTCAAAACAAAAACAAAGACAAAAACCCCAGGAGGTGGTCATTCGAGGCCAGCAGGGATTAGAAATGAGGACGGGCTCGTCAGACTGTGGCTTTCATTTTGACTCACTTCTTTCCTAGCCTGGTCTCTTGTGCCGCTTGGGGGAATGTGTGCTGCCCATGCACCCCACCCTGCCCTGTCTCCCAGCTCAGCCCCTGGGTATGCGCTTATCTCTGAGCTAGCAAGACACTTCCAGGTGGAAGGAGGGGTTTCTTCTCTGAAGTGGGGACAAGAGAGACGGCAGCAGCTAAAATGGAAGCTGGTCTGGCCCTCTTGTCTTCAGTATACACTGAGCAGACTTCTCATACAGGGCAGAGATCTGTTTACCTCTGTTAATGAACTACTGTTCCCAAGGAGGCAGCAGAGCAGCCAGTGCATGATGAAAAGTTGGTCTTTTTCTTCAAGATTCAAGGCTCCATCCCCGAGCCCTTTATAAGTTTCCCCATACTAACCGCCTTGTGTTCTAGACACAACAGATGGCTTGATTGCCTTCCTGAACACGTCTAAAGGCAAGGAGACGGTGGATAGAGTAGAACTGAAGGAGAAGGGGGGGTTACAGGCACACTTTAGGGAATGTTAACTAAAATGTGACCTTCACACTCAGAAGCTTGGCTTGTGAATCCCATGAGTCGCCGGGCTCATTGCCGCCTGTATGAATGTGTGCTCTTGCCTCAGATGGGGGCCTTTTAAGTTTAATTTTCAAATAAAAGTACCATTGACCTTAGGTTCCCCCATATAAATGCCAGCTTTTCTACAGGAGCCAAATTCTTCATACAGTGTCTCGTGGTGACTACTTTAGGCCAAACCCTGGCAGTGGGGACTGGTGTGGCCTGTGTTGAATTCCATGTCTGCTGGGGGTTTTCACAGCAAGAAACTGGAAAGAAGCCCTGTGTGGAGGAATATCACAGATTCAGGGTTCTGAATAAGACTGTCATTCATCAGGAAGGAAAGGGAGAGACTGTGCCACCAGCCAAAGGCCGGTGACCACGGCCCTCCCAAATTGTTAAATTACAGGTTCTCTTGTATACCACACAACTGAATACTTATACTAAGAGCCAGGGGCCATTACACCTTGGGGTGGGGAGGATTTCACTCCATTCACCCAGTAGGGAAAATTTCGTTGGCACGTGTTGTCAGATTTAGAAAGGCTCTTTGAGAAGGTGCCAGTAACACTTGGAAGCATTCGTCTTTTGCACCATTAAATATTAAGGGCTTACTTAGTGGGACGCTCCTCTCATCAGTGAAAGGTCTGACTTTTCTCATAAAGTGACCGTTTTCACCGCACTAATAGTGCTGGGGGAGCTTACTGACTGGAGGTCGCCATTGGGACTCTTTATAAACCTCTTACTGATTGCTGTGTTGGGGTAAATGAAAGCATGGAGGTTAAATGACTGAGCCTGGCTCACTCTCTGTCACTGCCTCAGACCACCACAGTGCAGGTCATTCTCAGTAGTGCAGTAGTGAAGCCATGAACTTAGGGTTGGGGATTCGGGAAGTCCTAATCCTGATATCACCATTGGTCCTTAG
Seq C2 exon
GGCTCCATAGTCGTGGGGATTGACTATGACTGCCGGGAGAGGATGGTCTACTGGACAGACGTTGCCGGGAGGACCATCAGCCGTGCCAGCTTGGAGGCAGGAGCCGAACCCGAGACCATCATTACCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000341:ENSRNOT00000000383:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.351 A=NA C2=0.023
Domain overlap (PFAM):
C1:
PF0008613=Thyroglobulin_1=PD(0.1=0.0)
A:
NA
C2:
PF0005812=Ldl_recept_b=PU(71.4=68.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATACCCACTGTCGCCCCA
R:
GTAATGATGGTCTCGGGTTCGG
Band lengths:
294-2205
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]