BtaINT0100654 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006907 | NEB
Description
nebulin [Source:HGNC Symbol;Acc:HGNC:7720]
Coordinates
chr2:44601937-44603609:+
Coord C1 exon
chr2:44601937-44602041
Coord A exon
chr2:44602042-44603501
Coord C2 exon
chr2:44603502-44603609
Length
1460 bp
Sequences
Splice sites
5' ss Seq
GATGTGAGT
5' ss Score
7.77
3' ss Seq
AATCTTTCCTTTTTTCCAAGTCT
3' ss Score
4.64
Exon sequences
Seq C1 exon
TTGAACTACAAGGTGGAGGGAGAGAAAGTGAAGCACAAGTACACTATGGACCCCGATGTGCCCCAGTTTATTCAAGCCAAGGTCAATGCCTACAACATGAGTGAT
Seq A exon
GTGAGTATTTGGCTGGGTGCCTGTCTTAGTATTGCATCAGGGGCCTCCCCTTTCCAGCTCTGTGTAATTCCAGCACTGAGAATTTTAGAGGAAGCCAACTGAGTGTGGGCCCTTGAGTCTGTTGGAGAAGATCATTGACAGGACAAGACTATCGGGTGTTCCTGGAGCTGGACCTGGGCAATTGGAGGCTCCTTATCCCACTCCTATCCCACAGTGGGAGCCATTTTCAAGGACGCGGCCTTGAGAGACCAATGTGTGGTTGAGACCACTCGGGACTGAATCTAGTTGAGGCCTAAATAAACTAGTATGGCTCTGGTGGGCAGTTGCAAAGATTTGTCTGTCTTGTGACTGCCCAAAAACACTCACTAAGTTCCCTTGTTTATTAAACCTGTCACCTACCAAGCTGGAGAGTTTAGCCTGTTTCTTAAGTTTCTCCTTGCCCTCCCTGTATGGGGACACATTTGCAAATCAATGGACTACAGATTGGATTCTTATCATAGAATATGAGGCTAGAGGTAGCATTCATTTCACTTAACGCAGACTTTTCCCAACTGTGGGCCATGATTCATTAGCTGTTAAATCAATCTAGTAGTCTGTGTTCCATTTTTTAAAAAGTGAAAGAAATTGGGACATTCAGATTGGAAAATCAGGAGTGCACAACCTGTAGTAATTGTAAGTATTGCTATCTCTGACTTTTGGCTATTTGTTAAACTTCTAAAAATGCTCACCACAATTTTCTTTAGAAAGTCTTTTTTTGTATGTGACTAGCATCTCTCTTGGATACTTAATTAGTGGTGATGTTTAAATGTACTATTATGAATTATTTCATTTTGCTTTTAAATCAAATTGGTAAATTCTAATTTAAAGACATAATCAAACCTGGATAAAACCTGTTCATTTCTTAAAAGATGACTTAGTCATTCTTCCTAACATTTTAGACTCTATTTTATTGCCAAATAAACAATCTTTAAGTACTCATTTTTATGCTTTTGGTTTATTTAAAACTTTTTCCCTAGTTTTATAAGTAATATTTAAACATTAAGGTTAATTAAAGCAGGGTAATACTATGTCTGAATTTGTTATTTTACTATCCACATCTTTGTGTAAGTTTAAAATGCTTCATACAAAAATTACAAGAAAATAAAAGCATTACATGCTTATTATAGAAAAATTGAAAAGTATAGAAAATTATGGAAAAATTTGTATTGTTATCCCACATTCAAAGCATTACCTTTCCACTGATTTTTTATACAAACATATACATTTTTTTACAGCAGTTGAGATCATACTGTGTATATAGTTTACTGATATATTTTTTAAAAAGAATCTAATAGATCGTGAAAAGATGAACAAAGAGCCCTAACTCTGAATTTTTTAATAGTAAGGGATATATTATGACGATTTTGGCATCCTGTTTTTAATTACATCAAATATTAAAATAATCTTTCCTTTTTTCCAAG
Seq C2 exon
TCTCATTATAAAGCAGATTGGAAGAAAACCCTTGCTAAGGGCTATGATTTGAGACCAGATGCCATTCCCATTGTTGCTGCAAAAAGTTCAAGGAATATTGCTAGCGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006907:ENSBTAT00000055345:39
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.086 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:
ACTACAAGGTGGAGGGAGAGA
R:
TCGCTAGCAATATTCCTTGAACT
Band lengths:
208-1668
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]