DreINT0104499 @ danRer10
Intron Retention
Gene
ENSDARG00000075707 | nid2a
Description
nidogen 2a (osteonidogen) [Source:ZFIN;Acc:ZDB-GENE-030827-2]
Coordinates
chr17:14788993-14790617:-
Coord C1 exon
chr17:14790508-14790617
Coord A exon
chr17:14789465-14790507
Coord C2 exon
chr17:14788993-14789464
Length
1043 bp
Sequences
Splice sites
5' ss Seq
AAGGTACGT
5' ss Score
10.75
3' ss Seq
GGTCCTGTTTTGTGTTGCAGGGA
3' ss Score
9.58
Exon sequences
Seq C1 exon
GGACGGAGTCATCTCTCTAGGTCGAGATAACCAGTTAACAGATGAGTACTTACCTGATCAGAGGTCTCATTTGTATGGTATCACAGTCGCCCCTCCACAATGTTTATAAG
Seq A exon
GTACGTACAGACTTCTGTGCCAAAGTATACAACTCTCTTGATTTTTGCTTATATAAGGCTCAAAGGGGTTTTTAAGCTTACATTTTCTTTTCTTTTATTACGATAACTATCATACATTTTTACCATGATTTACAGACACTTGCTAAAATTTATATAACAAAAACATCTTGTCAGGCTTATTAAGAACCAGAATGATGATTTACGTATTAAAATACTTGTTTCAATATTTCAGTTTCACCTCCTTCAAACCCATACTTGTCAACATTGGGATGTGAAAATAAGGGATATGCCCACCATAATATTTATTAATATATTTATAGCTAAACTGTGCAGGACACCGGCCCTCCAGGACTGAGTTTGGACACCCCAGATCTAAGCCAACTGTTTCAAACTTTTTAAAAACGATTTCAATTATTTAGACTTTTAAACGAGGCTTTCTCAAGCCACTATAAAGTTTGTCTACAAACTGTACTTTTCTAGTTTTAAATGATGTTGTGTATTTGAATTGGTGCAGGTCAGAATAAGAGTACGCGGTTTCAATTTGAACCTAAATATATCTGCTATGCTAAATGATGGATTCTGTTCCCATATTTTGGCATTTTCAAAAAACTTAGACTTGCATTTCACTTCACTTGCATTTTTTTGTGCTTTCTACTTGTGTACATTCATGCAGATACACTTAAAAGCCCATCACGTTTGTGTAGCACAGAGTCTTTGACCTCTTCCAGCAAATAACAGGATGAGATTTCAGGCATGAGCTGTCAAATACAGGCATTTAGGAGAAAAGTACAAGGCACCTGCTTCCAAATCACTGTAGTTTGACAGAGGCGATGAAACACTGCTGTGGCTCCGCTACTTCAAAGCATTTCAGATCTTTACAGACCAGAAAACAGTCAAACAAGATGAGAGTAAGTGTTTGTGTGTCTCTGCAAGTGGATGAAAGCAGGCGGTTTACACGTGTTGAAAATGAAATGTTAAAATATTTGTCTGAACTTGGCTTTTCTGTTAAGGATTTCTGATGTGGGTCCTGTTTTGTGTTGCAG
Seq C2 exon
GGAGATGCTAATGACAGAGCCAGCTTTACATGGTGCTATTTTTGGCTGAGTGTTTGGAGAGCTTGTGAGAATCACAGCCGAGTCGTGAACCAAAGAGAAGGTTAATGGAAGAAAGCGCAAGTCTTGATAAACGCCACCGTCAATGCCAAAGTGCAAATTTACAAACGTGAAACAGCGTGAATATTTTCTCAAAATAGTTTTGTAAATTTGTTTTATACCTCATTTCTTTCTACTGTACTTTTGTATGTGACTTTTTGTTTAAAAAAACTAACAAATAAAAAAAACCGTAAGAGATTAGTTGTGTCCTTTTTACGTTTAGGAAAAATAAAACAGTATTTGGGTGGAAAAATGTTTTGTTAGTGAAACTGCTTTGAACAACCAAAATGGGCTTTTACCAAAGTTAATGTTTTTAATCCTTTTATCTTTTGTAAAATGTGATATTTATAACAATAAAATGTGATTGACAACTTTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000075707:ENSDART00000155857:23
Average complexity
IR
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=NA
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TATGGTATCACAGTCGCCCCT
R:
AGGACACAACTAATCTCTTACGGT
Band lengths:
344-1387
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]