DreINT0106691 @ danRer10
Intron Retention
Gene
ENSDARG00000038991 | nsfb
Description
N-ethylmaleimide-sensitive factor b [Source:ZFIN;Acc:ZDB-GENE-050808-1]
Coordinates
chr12:22227083-22229164:-
Coord C1 exon
chr12:22229125-22229164
Coord A exon
chr12:22227250-22229124
Coord C2 exon
chr12:22227083-22227249
Length
1875 bp
Sequences
Splice sites
5' ss Seq
AAGGTACGT
5' ss Score
10.75
3' ss Seq
TGATGTTGTTTTGTTTGCAGTGA
3' ss Score
7.51
Exon sequences
Seq C1 exon
AGAAAATGGGCTGGACTCTCTCTAAACCAAGATGTGGAAG
Seq A exon
GTACGTGTGTAGTTTATTATTTTTTTACAGTACTAGGTGAAATAATAAAAAATATATATATTTTAAAGAATTTAAAATAAAAAGGTTGCCCGTAAAATCGACACTATTTGATTAGCTGATGTGTGCATTGACTAATTTTTTATTTTTCTCCATTTGTCATGAGAATATTTATTGTAGTGTCACAACTCTTTGGTTGGGTTAGATAGATGGAAGAGCATTAGATTGAGCAAAATCATTTTGATAAAATGTGAAGAAAAAGAATGAATTTGTTATTATACCAATAAATTACACCAATAAGTTCAAATGTAGACGAGTTTCTCAAAAATGTATTGCAAATGTACTGTCTCAAAAAACGGTAATATTGTGAATTATTTTTATTAATACCATGAAAGTTCTACAGTAACTTGGTATTGTTCTCAAAACCATGATATACTAGACTTGCTTTTTGAAGATGCTTTTATTAATAGAAAGTTAAAAAAGAATAGCATTGAAATTGATCTTAAGTAAAACTAATATCTTCATTCTCATATTTTTTGTTGTTGCTGAAGAAAAGTCTGTATTTAAAAAAAAAACAAAGGACATTTTAAAAGCTAGATTGTAGTAAAGTGTGGTGTAAGTAAGGTGTTAGCATAGTTTAGACTGTGGGTCCAAGTCTGACTATTTGTAGACTTCCGGTCAAAATTTTTAAGGTTAGATTTTTTATTTGAAGAAAATTATTCTGTTCATCAAGGCAGCATTTAATAAATGTAAAAAATTGTAAAATATTTGTACAAATTTTACATAACTGCTTTTTTATTGTATGCAGTTTCAAATTAAATGCAACTCTAGTTATTATTGCTTTTATTACCATTAATAATGATTAATAGTAATAGTAATAATGATAATAATAATATGTACATGTACTCTGAAGACTGGAGTAATGAAAATTCATCTTTAAAATCACTGGAATAAATGATTAAATTAAATGATAAACTACTGTTGAACAGTATTTTTATAGTGCAATAACATTTCACAATTTCACAATTTTTACTGTATTTTTTGATGAAATAAAGGCAGTCTTGGTGAGCAAGATAAGCTTATTTTAAAACATTCAAAAATCCTAATGACCCCAAAACTTTTGACTGGTAGTGTATATCTAATTGGAAACGACTGACTGTTCTCATTATTGTATTGAAACTGGTCAGATGCTATTTGTGAATGTCTGCATTGGATTTTATGCCAATAATGTTGTACTGCATTTCATACATAAGAAAAAAACGAACAAACAGACGTTGTGTTACTTTATGACAAAATGCTGCCGTTTGTGATGTATAATAACACCTTATGAGGCAGCAGCACAAACAATGGAAACTGGTATGTGTGGTTTTCATGCGTTTTGACATCTTTGCTGGTCTCAACAATTAAGGAGGTGTATAGACCAGCTGTACTGGTAGGATTTTAGCATTTTTCACCAGACTTTCACTTTGCAAAAACAACCCAGACTTGTTTCTCTAATAACGTTCAGCCTTTTTTCTACAAACAACATCTGACATGTCATGTTCACATTTTACATGATGTAAAAAAGCCAACAATAACAACTCAAAAATATGATAGGATCAGTCGTGATTTTGTATCGTCAAATGTACTATCCTAAGAATGTCCATATGAATTATATGTACAGTATTTACTAACAATACACAAAATACTTCATATACATAATTACATTTTTGATGATATTAATTTTGATCAATATAAAGAGTTCTAACATTTTTATGAGATATTTGGTTCTATTGTGTTTTATTAATGTCTACACCCAAACTCTAAACCTAGCTCTTACAGGAACCTGTTGAGTTTTGTTAATGTCTACACCTAGCCTTGATGTTGTTTTGTTTGCAG
Seq C2 exon
TGAGTGTCTACAACTTTGACCCGTCCAGACAGTATGTGGGAACCATGACAATCGAGATCGACTTCCTCCAGAAAAAGAGCATTGACAGCAATCCTTATGACTCTGATAAAATGGCCATTGAATTTATTCAGTGTTTCACTGCACAGGCCTTTAGCATGAGTCAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000038991:ENSDART00000153296:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.071 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0235913=CDC48_N=FE(15.9=100)
A:
NA
C2:
PF0235913=CDC48_N=PD(7.3=10.7),PF0293312=CDC48_2=PU(36.9=42.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAAAATGGGCTGGACTCTCTCT
R:
TGTTGACTCATGCTAAAGGCCT
Band lengths:
206-2081
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]