HsaINT0112265 @ hg19
Intron Retention
Gene
ENSG00000078114 | NEBL
Description
nebulette [Source:HGNC Symbol;Acc:16932]
Coordinates
chr10:21101698-21102972:-
Coord C1 exon
chr10:21102868-21102972
Coord A exon
chr10:21101870-21102867
Coord C2 exon
chr10:21101698-21101869
Length
998 bp
Sequences
Splice sites
5' ss Seq
ATGGTAGGG
5' ss Score
5.88
3' ss Seq
GATGATTTTTCCTTTTTCAGGTA
3' ss Score
11.8
Exon sequences
Seq C1 exon
GTAAAATATACCCAGGACCATAAACAGATGAAAGGTAGACCAAGTCTGATTTTAGATACACCTGCTATGAGACATGTTAAAGAAGCACAAAATCATATTTCAATG
Seq A exon
GTAGGGTCCAACCAGATCATTCTTAAAACATGCTAAGGAATGGGCGGATCCAGTGCACGGATGGCATTACTTCACTATTAATCCGATAACTAACAAAGCATGGAAATGTGGTTGGCTTGTCTTTTGAGGGAGGGGCATTTCTAATCACACTGAAATGCAGTGGAAACATTTAGTCTAATAAAATGATTTTTCTCAGTGACTTTTTCTGGTGTGTCTTTATTTCTAACGTGACTACTGTAAACTCATAGTGTGAAAGATATTTGTGTAGACTTCTTTCCAATTAATTCTAAGACAAAATTTGGTCTGTTTGCCTGTCATAAAGGATATGAAAAGAAGTGTGTTTTTAAAGCTGTGTTTTTAAAAATGTGTGTTTTAAAAATTATATTATCAGATGTAATTTACCTACCATAAAGTTTGCCCATTTAAAGTGTTCAATTCAATGGTTTCTAGTATAATTTACAGTTACACAACTATCTCCTGGACCTAATTTCAGGACATAAAAAAAGTATATTTTGAAGTATAAGTTTTTGTAATTATATTAAAAGTGGTATATATTGTTACCTATAAAATTTCAAACTGATTTTAAATAATGCCATTTTCATGAATGATTGCCTGGAAATAGATATCACTTTATTGCATACTGAAGTTGAAGAGATAGGAAATTTAATTTATATTTAAATTAGTATATTTTAGGAAGTAACCAGGATTTGAGAATATGTATTTTTACAAGCTCTCATTAATAATATATATATAGTTTTATATATAATTTAAAATAGATATGAGCTATAATGATTAAAAACTTTGTGAAAATATCAGCACTTGATTTCTGATGCTAAGAAACTGAAGTTCCAGACTTTAGTTTTGGAGTATTTGGAAAAGATACATACATGTAGACAATCTGCACGCAGCCAGTGCAGTGTACACCTGTCATTTAATAAAAATGTTGTGAAAGAGGTAACTATCCGCAAAATTCAGTATGATGATTTTTCCTTTTTCAG
Seq C2 exon
GTAAAATACCATGAAGATTTTGAAAAAACAAAGGGGAGAGGCTTTACTCCCGTCGTGGACGATCCTGTGACAGAGAGAGTGAGGAAGAACACCCAGGTGGTCAGCGATGCTGCCTATAAAGGGGTCCACCCTCACATCGTGGAGATGGACAGGAGACCTGGAATCATTGTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000078114-NEBL:NM_006393:23
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.867 A=NA C2=0.450
Domain overlap (PFAM):
C1:
PF0088013=Nebulin=PD(37.9=31.4),PF0088013=Nebulin=PU(55.2=45.7)
A:
NA
C2:
PF0088013=Nebulin=PD(37.9=19.0),PF0088013=Nebulin=WD(100=41.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATACCCAGGACCATAAACAGATGA
R:
CAACAATGATTCCAGGTCTCCT
Band lengths:
270-1268
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)