DreINT0103501 @ danRer10
Intron Retention
Gene
ENSDARG00000021200 | nebl
Description
nebulette [Source:ZFIN;Acc:ZDB-GENE-050320-151]
Coordinates
chr2:21421462-21422384:-
Coord C1 exon
chr2:21422207-21422384
Coord A exon
chr2:21421581-21422206
Coord C2 exon
chr2:21421462-21421580
Length
626 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGT
5' ss Score
10.24
3' ss Seq
ACTATACTATTCTTTTTTAGCAC
3' ss Score
8.45
Exon sequences
Seq C1 exon
GCGAAATATCATAAGGACTTTGAGGTGTCAGGTCTGCAAGGGGTCACTCAGGGAATGCGTGGGACGTACGCGGTGCGATCTCAGATGACGCCGAACAATGAAACTGTGGCTAACAGCACACACAAGGCTGTACATCAGTACATTATGGAGATGGACCGAAGACCTGGTGTTATCGTGG
Seq A exon
GTAAGTTCTCTACTCACACATCGTCACCTTAGAATTGTCAGGTTCTATCTGACATTTTTGTCAAAATTGAGCTATTGACATAATCTTATTAAATGTCAACTTATTTACATTATGGGTTGTTTTTTAAAGTTTTTTTACATTAACACTTTTTAATAAAAAAACACAAACGTTACACACATACTGTTTGCTATGGAATGCTAAAACTTCTAAAGCTCATCATCTTAAAATCATTCAGAACAATGAATTAGGGATAACTCTGTTAAGCTGTTAACAAAAAGTTAATTAGATCAAATTAACGCTTATAAAAATGAACAAATTATTTCAGCAGACCATAAACAAACCCAAAACAAGTCTTTGAATACTACTGTATTGTAATGTATATGTAACAGTTATGATTGTGATAATAATGTCACGTTTTCACAATGGATAAAAATAAAGCACAAAGTCAAACGTATCTCTCACTCAGTTTTCAATATGTATATGGATTATCTGTAGCACATTCTTATTATTTAAATTGATCTGTTTCAGTGGAAGTTACCCAAATCAGAAGTGCATATCATAATTTGAAACGCAGGCACAAAGGATAAACAGCAACTAAAACAGCACACTATACTATTCTTTTTTAG
Seq C2 exon
CACCTGTTCTTCCTGGTGCATACTATCCCAACAGTCACAGCCATGGCCACAGCTATATGCATCAGACCAGTATGCATTCACTGAGGTCAATGCAGCTGAGGTCCCAGCAGATGAGCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000021200:ENSDART00000032502:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.417 A=NA C2=0.375
Domain overlap (PFAM):
C1:
PF0088013=Nebulin=PD(33.3=15.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCGAAATATCATAAGGACTTTGAGGT
R:
ATGCTCATCTGCTGGGACCTC
Band lengths:
296-922
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]