DreINT0104489 @ danRer10
Intron Retention
Gene
ENSDARG00000075707 | nid2a
Description
nidogen 2a (osteonidogen) [Source:ZFIN;Acc:ZDB-GENE-030827-2]
Coordinates
chr17:14815803-14818439:-
Coord C1 exon
chr17:14818311-14818439
Coord A exon
chr17:14815929-14818310
Coord C2 exon
chr17:14815803-14815928
Length
2382 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGA
5' ss Score
9.21
3' ss Seq
GTTGTGTGTGGTGTTTGCAGATG
3' ss Score
8.65
Exon sequences
Seq C1 exon
ATGTTGATGAGTGTGCAGAAGGTCTGAGCTCTTGTGGTGCTCACTCTCACTGTGTGAATCTGCCTGGAAGCCATCGCTGTCAGTGTGAGAGCGGATTCCAGTTTGGATTTGATGGACGCACATGTCAGG
Seq A exon
GTAAGACACTTCTTTATTTCCTGTCTCTTAAAATTACACAGTTCTACGAAACTCTTCAATGTATAAAATTTGCAGGATAACTACAATCAAAAAGAAAATTAATAAATAAATACAAACGGCTCCCTTTTGCTTTTTATTTTATGTTTTTTTACTTAAATTGTCTCATGCATGATAGAACTTCTCTTTAATAACTAGTAAATGAGTGATTGAGCTTAATTAACCAATCCATTTCAGCTTAGGTTAAAATGCATGTGACAATTTCGACAGTGGAATGGGTTATCCAGATTGTAGTCATTTATATTTATTGTTTTGTTTATTGCATTAAGTTAGAATAAAGATAAAATATAATATACATTTATAGACAATTTGCAGAATAACTACAATCAAAAGAGAATTAAATGAATAAACTGTTAACTTGGCGAAGCAGTGGCGCAGTAGGTAGTGCTGTCGCCTCACAGCATGTGGTACAGGTGAATTGGGTAGGCTAAATTGTCCGTAGTGTGTGTGTGTGAATGTGTGTGTGGATGTTTCCCAGAGATGGGTTGCGGCTGGAAGGGCATCTGGTGCGTAAAAACTTGCTGCATTAGTTGGCGGTTCATTCCACTGTGGCGACCCCGGATTAATAAAGGAACTAAGCCGACAAGAAAATGAATAAATAAAACTGCTTTTACTGAAAGCATCGATTAGATTGACACATTTTAAAATTATTTTTATTATTATTTTTTTTTATATTTATAATTGCATTTTTTACAATGATACAGTATTATTCAAAAGTTTGGGGTCAGTAAGATTCAGTTTTTAGCAAATAATGAAAAAATTATTTATTTTAAATTACTTTAAGCTTTTATTTTGGAAGGATGCATTATATTGAGAATAGTTTATATTTTATAACAATTTATGAGGGCATTTATAATCAAATTTAATTTTCACTCTTATACTATTTAATCTTCACAATATTTTAAAATGATTATTAGTGTAAAATAATGGACGTTAATTAATTAATTAATTAATTCATCTTCTTTTTGATTTAGTCCCTTTATTAATCAGGGGTCGCCAAAGCGGAATGAACCGCCAACTTACTTAGCATATGTTTTACGCTGCGGATGCCCTTCCAGTTGCAACCCAACACTGGGAAACACTTATACACTCTCATTCACGCACGCCATTATAGTTTATTCAATTCCCCTGCACCGCATGTTCTGACTGTGGGGGAAACCGGAGCACCCGGAGGAAACCAAAGTGAACACGGAGGGAACATGCAAACTCCACACAGAAATGCCAACTGACCCAGCCGGGTTTTGAACCAGCAACCTTCTTGCTGTAAGGTGACAGTTCTAACCACTGAGCCACCGTGACACCCAGATTTAAGACATAAATAAATCAGAGACTAAAGGCTCGTACACACCGGGACGCTTTCCGTTTGCGTTTATCGTCAGCATTTTTCAAAACGTTTTTCCGGATTCACACCCAATCGATTTTCACTAGCGTTGAGCAGAAAAGTATGCAAAATCACTCCTTGGCATTAGTTGGCGCTACACAACTTTAAGCTTCTGAGATCCGCTTGTAACACAGAGGAAGAAGACAAAGTTTTTTTAAAAATGACGATTTTACAACTGCCGTTTTGCGCGTTGGTGTGCACAATCCCATTTGCGCCATTTATTTAGTCACTAGGCGTTAAACATCAACAGAAAGCACGAGCAAAAAACATCTCCGTGTGCACAGGCCTTAAGCCGAAGGAAAATGAATCAATAAATGTTTTAAATCTGTTTCAAGAGTTTTAAAAATGCAATCCCATAAGGAAGATTTTGTTTCTGTTTTGAAACTGAAGTCATTATTACTTTTTAGTTTTGTTTTTTACTCTTTCTATATTATAAAGAGTGTTAATTGTTAACGAGTGTTTAAGTGCTAATTAATTAGTTGTGTTGTGTGCTTTTTTGTAAATTCTGTACTGTAAAATAATTATACTTTACAATTGGTCTTAAATTAGATTCTTTTTGGTATTAAAAGATCTTATATATAACTATTACAAACCGGCAGATACCCTGTAAAGAGGATGAATGTTGATAAAGCAGGCTCATTCTCTCAGCTGAATTCTATAGGTGAAGGCTTTGCGGTGCGAGTAACCAGAGCCGCTGGGGAAGGAGGGGGAATTTAGAAACAATGACCCAATGTCCTCACTCGAGGAATGAATGTGCGTAGGAGAATCGCAGCTGAAGACCAAAAGGGGGTCAGAGGACATTTAACTCTTCTTCTTCTCGCTCTCTGGTCTTCAGCCGGACGGTGGGAGTTGAGAAGTCGATGGCCAGAATGACTCAGACTAACGTCCAGAGCAATACGCTGTAAGTGTTTGTTTGAGTGTTGTGTTGTGTGTGGTGTTTGCAG
Seq C2 exon
ATGTGGACGAGTGTGGTGAGCAGCCGTGTCACGCCCAGGCCTTGTGCTCAAACAGTCCGGGATCTTTCCGGTGCCAGTGCCAACCGGGATACCATGGAGATGGTTTCCAGTGCCACCCTCAAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000075707:ENSDART00000155857:10
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=0.023
Domain overlap (PFAM):
C1:
PF0764510=EGF_CA=WD(100=95.5)
A:
NA
C2:
PF129472=EGF_3=WD(100=79.1)
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]