DreINT0103452 @ danRer10
Intron Retention
Gene
ENSDARG00000032630 | neb
Description
nebulin [Source:ZFIN;Acc:ZDB-GENE-041111-216]
Coordinates
chr9:23043470-23044651:-
Coord C1 exon
chr9:23044547-23044651
Coord A exon
chr9:23043578-23044546
Coord C2 exon
chr9:23043470-23043577
Length
969 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGT
5' ss Score
10.47
3' ss Seq
TTTTTCAAATGTTTTCTAAGAAA
3' ss Score
4.98
Exon sequences
Seq C1 exon
CAACAATATGCTAGTGCCTGGAACAAAGACAAGACAAAGATCCATGTTATGCCAGATGCAATGGACATTGTACTAGCAAAACAAAACAGGGTCAACTACAGTTTG
Seq A exon
GTAAGTATAAGGGTGCTTTCGCACCTGCCTTATTTAGTTTGGTTGAATCATACTAGAGTTCGTTTTCCCTCTTGTTGTGGTTAGTATGGGCAGGTGTAAATGCAGCAATCGTACTCTAGTGTGCACCAAACGGTGTACTAAGACCTACTTGAAGAGGTGGTCTCAGTACGCTTTCCAACGAATCCTGGAGTGGTTTGTTTGTGGTGAGAATATGATCTGAACTAAAACAGACCCAACCATAAAAAGTACTGTGCCTTTTGGACTAATCCAGCAGCTGTAGGCTGATGCGCTGTGCATTATGGGATATGGAGGAAAAATATTTGTTTACAGCACTTTATAAACAGGGAGAGAGAGAGAGCCGCAGAGAGAGAGAAACATTACCTGATGTATCGTTGGTAATATTTCCGCAAGATGACCATGTCGCAGTTTAGCTAAATTAAGTCACACCTCCTCCTGAAGTGACGTGCGATGCATTAAAACATTGTTTTCCAGCTGCAGCCGCGCTTCATTCTCAAAATGTATAGTTTGTCTAAAGCAGGGATACAATCAGTAAGCGCAGTCATACCTTTATAGTAAAAAGTGACATTTTGTGTCTGCTGGTTTGTTTACTTGCGGGAATTCATTGGCATTTCCCTGCATGTGTTTTCTGACCAATCGAAAAGCAATTTAGGAACTGTGTTCAACAACATCTGGCCAATGAGAGATGTGGATTTTGTCAGATGAGTACATTTTGGATATTTTCAAATGGTTCGGACCAAAGCCAGCAGCGCGGTGTGAAAACGACCCAAAGATGGCTGAAAATGCAACAATGTATAATTTATTGCCGGTCCAGACCAAATGAAGTGAACTACAGATGTGAAAGCACCCTAACTTAACATTGCACTCTTGATGATGCATCATTTATGTTAATGATTAATAAATAATGAATTGTTGTTTCAATAAATTAACCTTTTTCAAATGTTTTCTAAG
Seq C2 exon
AAATCATACAAGCTTGCAAATGAGGAAGCTAAAAAGAAGGGCTATGACATGCGAAATGATGCCATCTCCATCAAAGCTGCCAAGGCCTCCAGGGACATCGCCAGTGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000032630:ENSDART00000143888:51
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(55.2=44.4)
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:
ATGCTAGTGCCTGGAACAAAGA
R:
ATCACTGGCGATGTCCCTGG
Band lengths:
206-1175
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]