DreINT0103385 @ danRer10
Intron Retention
Gene
ENSDARG00000032630 | neb
Description
nebulin [Source:ZFIN;Acc:ZDB-GENE-041111-216]
Coordinates
chr9:23025059-23026962:-
Coord C1 exon
chr9:23026858-23026962
Coord A exon
chr9:23025161-23026857
Coord C2 exon
chr9:23025059-23025160
Length
1697 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACC
5' ss Score
9.24
3' ss Seq
TTGTCCATGACCTCCTATAGTGG
3' ss Score
2.6
Exon sequences
Seq C1 exon
GGAAAATATAAATGCAAGGCCAAGGAGTTACTCAAGGGTGGCTGCAATGAGCTGCTCCGTCCCGACATTCTCGTTGCCATGTACAACTCTGGCATGTGGAGTAAG
Seq A exon
GTAACCATCTGCCCACTGGTAGTCCACGAAACCCTCTAGAAATCCCATTTCTTCATCAATGCACCTCTAACTCCACCTGTACTGATCAAATGCAGCCATTAATAAACTATAACCAATTTGGATTTTTTTCACCATCCCCTACTGAGCCACTGATCCACTGATCACCGTTCATTCATAAATCCAATGGATTTGCTAAAAGAAACATGGGAAATTCAGCTAAAGCAGCGCTTCATTGCCCATATATACAGAAGGCTGGATCTATCCTGATTATCATGATAGCATACAGAAGATGCTAGACAAATTTTACTCATTTAACTGAAGATAAGGGTGTTTTTATAAATGCCAGATTTATATTGTAGTTGATATTTAGCCGCACCTTGTTGGTGTTTCGTAATATCTCATTTTTACGAGGTGGGTCATTAGCCCAACGCTCAATCCCCAATGCCAGGTTTCCACACACACACACAAGAGACAATTATCTCGGCCCCCTCTCTTTAAGTTAATCACTTTTTACTTTATACAGAAACAGTTATACATCAAACAGGTTTAAATAATTTCATTAAAAAACTAGTTTGGTTCAATAAATACCCCAATGTTTAGTATATATTTTAAAAACAAAAGAACTAATAAAATAAAATGTATTTGGAGATTAAATGGCATATTGAAAAGTTACCTGAAGAGACAAAGATGTCATCTGGTAAGAATAAAAAGTTTTAACTTGTCTGTCTTTCTCCATACTTTTGCCTGAACCTGATTTCCACCTACATCTTTATTTTTAGCGATTGCATATTGCATGTTTTCTGTTGCATGTGTGTGAATGAAGTTTTGTAGATTTTAGATATGCTTTTTGTAAGCCATTATTTGCATGCTCAAAGTTTACTTTATATCTGTTACTAATAAAACTTTCTTTAATAACTGACAGTTATTATTCAACTTTAATGTCAAAGTTTCTAGCTTGGTTTTCCTTATAAATGTAAATATATTACTGTAAATGAAAAATAAGAGCTTTCACTTAAACTCTTAACTGCTAAGTATGCTTATTGATAGTAAGGAAGATGTAATAGAGTATATTTCTATGTATAGGTATGTAATTTATAAAAACAAATAAGTAGGCCCAGACAGAATCTGCAGACATTTTTTGTTATGTCTGCTGAGATTTTTGCAAAAAATCCTCAGATTATGTTGAATTATTTTAGGAGTGTTGTAACTAAAAGTTTAATATATTAAATAAAAAGTAGTAGCGTTTTAACTTTTATGTAATAGTTACAATGCATATCCATCTAGATTCACTTATATGGTAAACAAAGCAAGTCTATCAAATAATATATCTATTAAATTACAGAAATTATTACTTTATTTGTTGTAAATAAATCAATTGAACACTTTTATATTAGTCAATATTATTACTGAAATTAATTTAAAAACTGAATAAACATAAATTTACACACATTTACACAAGTAAACAAATAGACTCAGTAATGGGCTAAAACTCTGCAGATTTCTGCATGCCTAGATTCTATGTGGGCCTACTACTAAGTAAACCAATATGCTTCTTATTATAGACTATAGTTTCCTTTAATATAAGATCAGCCATAACTTCCCAATGAGCAAATTTAAAAGATAAGCTTCATTGAATTTGAAATGTGGTCTCTAAAATGAGTCTCTGACAATCATTTCTTGTCCATGACCTCCTATAG
Seq C2 exon
TGGAAGTACAAAGAGCAGTATGAACGTGCCAAGTCAAAATACACTGCAGTTCTGGACACCCCTGAATATCAAGTCGCCAAGCGCAGCAAGCAGATCAGCGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000032630:ENSDART00000143888:107
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=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0088013=Nebulin=PU(53.6=44.1)
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:
GGAAAATATAAATGCAAGGCCAAGGA
R:
ATCGCTGATCTGCTTGCTGC
Band lengths:
207-1904
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]