BtaINT0100680 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006907 | NEB
Description
nebulin [Source:HGNC Symbol;Acc:HGNC:7720]
Coordinates
chr2:44639047-44640641:+
Coord C1 exon
chr2:44639047-44639151
Coord A exon
chr2:44639152-44640533
Coord C2 exon
chr2:44640534-44640641
Length
1382 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGG
5' ss Score
7.81
3' ss Seq
CTCTGACTTTCCTCCTATAGACT
3' ss Score
9.47
Exon sequences
Seq C1 exon
CGCTTATACACAGAGGCCTGGGACAAAGACAAGACTCAAATTCACATAATGCCTGATACTCCAGAGATCATGCTGGCAAGGCAGAACAAACTCAACTACAGTGAG
Seq A exon
GTAGGGGAAAATCTTGTGGGGCCATACTTGTGGTTGTCATTGTAGTTGTTTTCTACACTTACTTTTATGAAGAATCTTGGATCTCAGCTGTCCTGGAGGGTATAACTCTGTGATATGAACACTCAGCCCATCCAACCTTTCATCTGTAGTTGAATATCATATGCTATAGGATTCCAGGGGAAAACTGAAGTCACGTTATCTTTTCCATTTATGGTCTTTACTGGTGTGAGTCAGTGCAACTGGAGAGTATTTTTGGCATTTCCAAGGGGTAGTATGACCAAATGTAATACTGATATATTATTTATATGAAAACATTATTTGCTGTTTATCTGAAATTCAAGTTGAGCTTGGCATGCTATCTTCCTATTTGTTAAATCTGGCAGCCCAACCAAGGGGGCCTCTAATAATACATACCCCTTTCCCACCTGGATCCTGAGTGGAATTAGAAGGAAAGCAAAGCAATGAAACTAGAAGTCAAAATCTCACATCTTTTATTACTAAAGTTAGTTTCAAGGGCACGTTTGTATGAGAGCCAAATGAACTTGCTAAGTGAACCCCAGAATTGGGTTCCTCATGCAAGTATAGGCCATGCTGGAGCAGGAGAGTCAGCTCCACTTCCCTCGGGGGTGAATCCTGCTTAGAGCATGGAGATATGCAGAGGAGGGCACTGGGCATATTTTCCTAAAGGGAACAGGGGGAAATGAAATAATCAAGCTCTTTTTATAGGAAGAGAACCTTAGGCATTAGAAAAACGTGTTCTCCGTTGACAAGGCTAATTACTATTTTTTTAAGTAAAATGCAATTTTATAGGTGCATGTTTTACTAACATGAGGCAGCCAAAAGTTAGAATCTTAAAGTTGTGATTGTACTCAAGTTAACTTTAAGTTGTGCTTTGATCGTTTTCTCATTTGTTTTTTAAATATTATAAAATACCATGATTGTCAAAAATTTTTAATAATGAATAAGAGTATATAAATGTTATTTTTTATCAAATGAGTAATATTAAACATATTGTCCTGCAGGTTTCTTTTCACTTAAGATGTATAAATTGATGCTTTGTTCATCAATCTATATCACTAAATTATATTAATCTATGTTGGTATACATAATATATCATATAACCTACATATTATATATAAATCTATAATGATATAAATAATAGATTATTCTATGTTAATACTCATTGATATATTTCATTTGTTTCTTATGCTACAGAGTTTTTTGGTAAAATATAATTTATTTGCTTTCCAATACCGCTAGGAAGTTGTTTCCAGAGCCTTTCCTTTTTAAAATTTTGTGATATGTCACTTGATAAACTCCAGATTGTTGCCATCAAATCTTTCACTGTCAAACCTGCTTTAACTCTGACTTTCCTCCTATAG
Seq C2 exon
ACTCTATACAAACTCGCCAACGAAGAAGCAAAGAAGAAAGGCTACGACTTGAGAAGTGATGCCATCCCGATCGTGGCAGCCAAGGCCTCCAGGGACATCATCAGTGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006907:ENSBTAT00000055345:66
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:
PF0088013=Nebulin=PD(37.9=31.4),PF0088013=Nebulin=PU(55.2=45.7)
A:
NA
C2:
PF0088013=Nebulin=PD(37.9=30.6),PF0088013=Nebulin=PU(55.2=44.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCTTATACACAGAGGCCTGG
R:
ACTGATGATGTCCCTGGAGGC
Band lengths:
210-1592
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]