DreINT0104490 @ danRer10
Intron Retention
Gene
ENSDARG00000075707 | nid2a
Description
nidogen 2a (osteonidogen) [Source:ZFIN;Acc:ZDB-GENE-030827-2]
Coordinates
chr17:14812760-14815928:-
Coord C1 exon
chr17:14815803-14815928
Coord A exon
chr17:14812988-14815802
Coord C2 exon
chr17:14812760-14812987
Length
2815 bp
Sequences
Splice sites
5' ss Seq
ATGGTAGCT
5' ss Score
2.12
3' ss Seq
TGCCTGTCTGGTTCCTCCAGGTC
3' ss Score
11.05
Exon sequences
Seq C1 exon
ATGTGGACGAGTGTGGTGAGCAGCCGTGTCACGCCCAGGCCTTGTGCTCAAACAGTCCGGGATCTTTCCGGTGCCAGTGCCAACCGGGATACCATGGAGATGGTTTCCAGTGCCACCCTCAAAATG
Seq A exon
GTAGCTGTTTGCAGATTTGTAGTTATTTCTAGCGATGCATCTGATTTCATGACAATATTTTTTTTGGATTTATTTTTTTTAAAGAGCCTCTATTATGTTTTTTTTTTTAAATGACCTACCATGCAGTGTGTAACACAGCTCTAAGTGAAGTGAAATATCCAGCTAAGGCTTAAATCTGAAAGTGGACAGTGTTTAAAACTAATGATTCATCTATAAAAAAAGTCGACTCAGAGTGGGTCAAATGAATCGTTGCGGTAATGATTGAATGATTGATTGCGGTAATGAATGAATTTAGTCGTGTCGGTGTTGTCGATACGGATCTTAAAGGGCCATGAAACCCCCTTGTTTCAGCAGGGTGTTTTCACACCTCTACTTTGGAAAAAGCCAGAAAAGTGGGCGTGTCCAGCTCTGTTTAGGGTGGAGTGTCGGAGGAACTAAAGTTGGATGGTGTGGGAGTGTCTATTTGGGCACGCGTGAGTTTCAGAGTCAAAATACACACAAACACACGGGAGAAAGTGACTGTGTTTACATGGACATCTGTAGTCGAATTATTTGCCAAATTATTAAATGGTGGACTTTAACTGCAGTTTGGCTCTTTCATTCAGGGAATTCATTCATGCCCCTCGCAACAAACTAGATATTTGATTCGAGGAACTGCTCTAAGCGTGTATTTTTCACGCAATGTTTGATACCGCACGGCGAATGAGTGAAAAAAAACCTCTGCATTTCCCGGAAACTTAGATGCACACGGCAGGTAGCGTCAGAAAGCCGCGTGTGTTATTCCGGTCACAAAAAAAAAAGTTTGGTTGTAGTATTAACATGTTTACACTCGGTGCAATAGTTAAGTTCGATACGAACAAACTGAATAAACAAAGAGGACTGGTCGCTCACTTACCAAATCTGTAGAGACAGGACAATCACCAGCAACTAGAGCCGCGTCTTTATTAAGAGAAGACTACAAGCGAATCCGGATCTCAGCGTTTGCAGATGAGAACAGCTCTCAGGTAAACAATGTGCCTCCTTAGACACGTAAGTTATTGTTGTCGAGCTTCGCGTACACTGTTAATCCACGTGACTCCAGCTGAGCTCTCAAAGAGAGAAAATGAAAACGAAACTCAACGGCAGCAAACTATAAAAGCAACACTTCACGCTTGTTTTGCCAACACAACGTGGCGTCTCTGTCGTCTAACCACTGTGACAGTAATGAATATTAATGAAGTTGCACAATAGAGCGCGCTGATTGGTTTGAACCAAGCCTTACTCATGCATTAATGCATCACATTGTAAGACGTAATAAGACACACTCTGGCACAGACGTCCAGTCTGCACGCTGGAATACAACGCTATTATGTCATGACCGTGACGCAGCTTCAAAAATTCATTTCAAACCGGAAGTACAAATTTGCTTGAAATAACGCAAAAACAACCAATTTACTCTTTTTAGTGAAATATAGGTGTCATAATAGTGTTTTTAGCAGTGTGGGACACATATACGACTGTCAACAGCTCAAAAAATGTGTTTTGGTGTTTCGTGACCCTTTGAGTCTCATCCATTTGTTGCGCACGCAGACCCGGGAAAATTGAACCTACTGATGTATTGAACTTTGTCAGAGCTTGACAGGAACTTTACAGTAGACAGTTCATGGATCAGTTTCTTCCTTCCTTTCACAAGTGTAAGGAACTTAAGTGCAATTAAAATGGTTGCTTTCTGTGTATTCTCTAGCTTGCAAATTATATATTGTGTTTTGTTACTTTTAACCGATCCACGCGGCTTGTGCTGTATCTGGTTAACTCTTTATATTCTGGTATCGCATCTAAAATCAGGCTGAAAACACCACACGTGCAGCTTCCTTAACAGATTTTGATGCGTTTGTGAGCTCGCAATCCACTGCCATTTGTCGTTGCTATGGCCACCGTCAGCTGTTCCTACACATGTGGCGGTCAGGATTCAAAATAGGTCAGCTTTTGCCACTGTGTGGATTAATACTGAATGTGTGTCGTTGTTTTTACTTATGGTTAAGAGTAGAGTAATATGCTGGTGTTTAACTGCATTGCTTTAATGCACTCCTGAATTGGGCTCACACATACTCTCTGCACTCTGACTACTTCAAAATTGTTGATTAGCCGTGGTGGGCGATTCTCTCTGTCTCACGCTGAACGCAGTCAACCAATTGCAATAGACTGGGTCACCGGACCAATCAGCGCACATTAGCATCGCACTAAGGAGGGGTTTGGGACAAATGAATCGCTGACCAAATCATATTAGACTCGATGGGAGAATTAGATAAAAATAAATGCATGTTATAAGACAATGAAAGTGTTTTTTGACATTGCATGCCAATCAGAATGTTGTTGGAGATCCTCAAAACCAAAATATGACCTTTTATAATGCATATTATTATGCAATTAAAGTCACTAGTGGGTGTCCATCCTTGAGGTTGGTTAGGAAAGGTTCATGAGGCGAATGAGTTTTCTTGCTGCTAAAAATAATTTTTTTTTTTTTGCACCCATTTTTTTTCTCCACCATCATGTCCCTTCCGGGTCTCCGTAAAAAAATCTTACAAAATTACTTTATATTATTTAACCATTATTTCAAAGCATTTTCAGTTTTCCTTTTCACCCAAGTGTGTCCAAACTTTTTGCTGTCACTGTTGCTGCTGTCAATGTTTTGGTGCATTCCTACTAAAAAGAAAATGCGATCTGAACTGTTTTGGAAACCATGGGTTCCCATCATAAGATGCTTTGATGTAACCTGTTTATCTTTAATCAAGCCTGCAAAGTTCCAGATTTGACAGTGCCTGTCTGGTTCCTCCAG
Seq C2 exon
GTCATCCCAAGACCCGCTGTGAGCAGCACAGAGACAGTCTTCAGAGTGGAGATGGTGGCGTTCCTGCCGTCGGAGCTTTCATCCCTCAGTGTGATGAGGAGGGTCAGTACAGGCCGCTGCAGTGCCACGGCTCCACTGGACACTGCTGGTGTGTGGACAATAGAGGGCAGGAGAGAGCAGGAACCAGAACTCCACCCGGATCACCACCTAGAAACTGCGATGAACCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000075707:ENSDART00000155857:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.023 A=NA C2=0.394
Domain overlap (PFAM):
C1:
PF129472=EGF_3=WD(100=79.1)
A:
NA
C2:
PF0008613=Thyroglobulin_1=WD(100=89.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]