RnoINT0101057 @ rn6
Intron Retention
Gene
ENSRNOG00000002461 | Nid1
Description
nidogen 1 [Source:RGD Symbol;Acc:3178]
Coordinates
chr17:90553394-90555902:-
Coord C1 exon
chr17:90555790-90555902
Coord A exon
chr17:90555382-90555789
Coord C2 exon
chr17:90553394-90555381
Length
408 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACA
5' ss Score
8.92
3' ss Seq
CTGATCTCATTCTTCTCCAGGCC
3' ss Score
10.54
Exon sequences
Seq C1 exon
GAACTCGGTGATTGCCATGGACCTTGCTGTATCCAAAGAGATGGATGCCTTCCACCCACATAAGCATACCCGGCTCTATGGAATCACCATTGCCCTGTCCCAGTGTCCCCAAG
Seq A exon
GTAACATCCATGCTGCTGCATAGGGGTCAACACCCAGAATCCCTAAGAGAATCATGGTGGCCTAAGTACACCCATGGGCTCCTTCCTGTAGGTATCCTAGCCTGCATATCCTGGATATCCCTTCCTGAAGGATTCCTGGATTTTTCCCACCTCAATTAGCTCAATCTAGAACCTCCTAACAGACATACCCAGAGGTGCATTTCTGATGTGATTCTACCAAGTTGACAATCAAGATTAACCACAAACTTCTAAATCAGAAATGCCTGTCTTATGTTTGTGCCTGTCTTAAAGAAACCAACAGCAGCTCAACGTGGCCCCTTGAGCCCACAAGGAGGTTAATGGGGAGCGTGCTGTAGGTACAAAGTCAGTCAGAGGGAAGACTATGACGCTGATCTCATTCTTCTCCAG
Seq C2 exon
GCCACAATTACTGCTCAGTGAATAATGGTGGCTGTACCCACCTCTGCTTGCCAACTCCAGGGAGCAGGACCTGCCGATGTCCTGACAACACCTTGGGAGTTGACTGCATTGAACGGAAATGATCTCAAGAATTCCTTGCTCCCTCTTCAAGTATTTCACAGTAACACCCTACTGGAAGTGACTTGATTCAGACTGAAAGGTGTCTTTTAGTGGTGTGACCACTAGGCTCAGCTCTAGCCTAGCTTGAGCCCTCACAACTTTCCCTTAACCTTCCCTAAAACAATTACCCTTAGCTCAGTAATGGGAAAATCTCTACCCCAACATGAGGACACACACACACACACACACACACACACACACACACACACACACACACACCTTGATCTCAGTCTTCAGAAAAGATTATAGAGTTCTGGATAAGGAGCCAAGGGTGGTGGTACATGCCTGCAACCTCAGCAGTTGGGAGTAGAGAATCTATCTTGTCTGTGTAGCAGGGTTCAGGGACAGCCTGAATTTTTTTCTTCAAAAAAAAAAAAAAGCATAGGGTGAAAATTATGTGTTCATTCTAGAGCCATAGGACCTTTTCCTAATCCTAGACTCCCTCATAGTAAGCAGACCCTCAAAAACCTAAGAAGGCTACTTCTCTGTGGCATTACAAGCTCAACTGTTAACCCAGTTTTTCAACATACTATCCAGATCCAGCTTACATAAGGTAATGAATCATACTTTTTCTCTTGGTACTCGAATCTCTGTCTTTATGCTCCCATCTAACTACTCTCCTGTTGTACACCTTGATCCTGCCCAAGACCCTGCTTTTAGTGCCTTCTCTGCCATGTGATCAAAGGTCAACATGAATCCTAGGGATTCATGAAATTTGGTGGATGGTAAAAAGTAGCCCCTCCCAAATTAAAAAGTCCTAGCATTTCAGTGGCCATCGATAATCAGGTAGGTAAGTCAAGGAAATGTCCTGTGAGAAGAATTTGAAGATGTAGAGTCAAGATGTTTGAAGACAGGGGATTGTTATTTCAATATGTCTTGAATTGTAGCAAATTCTTCCTCTTTGCCGTTGTATTAGTATCTGGTCTATGATGTCATGGGAGTCTTTAGCTCACTCCAGTTTTCAAGTCTTCTCATGGAGAGTCATCTGGAGCCCAGGCTAGACTTGAACAAAGCAGTGGCCTGTCATAGTCCCTCACCTTTAGAATTGTATCTTTGTTTCTCCCTCTCTCTATGGCCCTTTCTGACTAGATCCTTATCTGAAGACACACTCTAAGAAGATCTAACTGGGTATTTCTGCTAGACCCTAGTTTGATCATTGGTATAGTTTGAGGGACTGTTGCTGCTGCCACCTTCTATGTTTCTGTCTATGATTTGTTTCAAAAATATCCCCTGACCAGCATAGCTACTCTTCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCATCTATATATTTCTTTTTCCAACAGTTTTCTAGACACTTAAAGCATTAGAAATTTTGGATTGAAAGTTTAGCACCAGAAGTTCAGTTTGTACAGTGTAGGGTGAGGGCACAGACAAGACTCACTTATCACAAAGTGGTGGGTAAGCATGGAAAACAGGAATGGAAAACCCAAGAAGAAACATCACGGAAGAGGCTTAAAGGCAGCTAAAACTAAAACCCTTAAATAACTTCAGAGAAAAATGGAACATTTTCCAAAAGAATGCTTATCCTTGAAGACATAAAAGAACTTGTCTGATGTTTTTCTCGGGGAACAGAACCCCCTACCTCCTTTTCTTCTAGCTTTGCAATAGTCAGCCCTCCAACCCTATCTCCTACCTCCACCTCACCCTGCTTACATTGGACTGGGAACCTAAATTGGAAGGGAGTCTTTACTTACATAATTGGAATTTAAATCACAAGATTTAGGGAACATGTGACTCTTTCATGCAACCTCATAAAGTAGCCTCGAATTTTTGTTTTTTGGGTTTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000002461:ENSRNOT00000003349:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF146701=FXa_inhibition=WD(100=75.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACTCGGTGATTGCCATGGAC
R:
GCTAGAGCTGAGCCTAGTGGT
Band lengths:
350-758
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]