BtaINT0100729 @ bosTau6
Intron Retention
Gene
ENSBTAG00000013339 | NEBL
Description
nebulette [Source:HGNC Symbol;Acc:HGNC:16932]
Coordinates
chr13:22412868-22414123:-
Coord C1 exon
chr13:22414019-22414123
Coord A exon
chr13:22413040-22414018
Coord C2 exon
chr13:22412868-22413039
Length
979 bp
Sequences
Splice sites
5' ss Seq
ATGGTAGGG
5' ss Score
5.88
3' ss Seq
ATGGTTTTTCCCTCTTTCAGGTG
3' ss Score
12.87
Exon sequences
Seq C1 exon
GTAAAATATACCCAGGACCAGAAACAGATGAAAGGTAGACCAAGTCTGATTTTAGATACACCTGGTCTCAGACATGTCAAAGAAGCTCAAAATCGTATTTCAATG
Seq A exon
GTAGGGTCCAACAGGTCCTCCATCCGTGACTAAAACGTACTAAGGAGTGGCACCACCCCGTGCACCGATGGCGTTGTTCACCATTAATCTGGATAACTAACAAAGCATGGAAAGGCCCATGGGCCCATCCTTTGGGGGGAACTTTCTAATCTTACTGAAATGTACGGGAAATATTTAGTCTAATAAAATAATTTTTCTCGGTGATTTTTTGGGGTGTGTTTTTATTTCTAACGTGACTGCTACTATAAATGCTTTTTATGGAAGATACTTGCTTGGACTTTTTTTTTCAATTAATATTAAGATGGAGTTTGGTGTGTTTACATGTTTAAAGAATATGAAAATATGTATTTTTTTAAAAAACAGTCTCATGAGATATATTTTATATACCATAAAGCTCACCCATTTAAAGTATACAAAGTAGTTTCTAGTATAATTTACAGAGTTAAACAACCATCACCCTAACCTAATTTCAGAATGCAAAAAACACGTGTTTTGAAGTATATGTTTTTGTAACTATATACAAACATTATATATGTAGTTATATGTAACTTGCTCTCTTAATCGAATTTTAAATAATATTGCTTTCTTAAATAATAGTATAGAAATAGCTTATCATTTTATTGCATACTAAAGTTTAAGAGATAGGAAATTAACTTATACCTAAGTGAGTACATTTTAGAAAGTAACTAGGATTTGAAAAATAAATCTTTCAATACTTCTTACTTATATACAAGCTTATATATTAAAAGAGCTGCTAACTGCAATGATGGAAAGCATTGTGAAAATATCAGCACTTGATTTCTGATGCTAGGAAACTGAAATTTCATAAATTATTTTTGGAATAACCGGAAAAAATACATTTATGTAGAAAATAATCTAGATGCAGCTGGTATAGTAACTTTCTTTATACTCAAATTTTGTGAGCTGTATAGCATTCAGGAAATTTCAGTGGAGTTACTATGGTTTTTCCCTCTTTCAG
Seq C2 exon
GTGAAATATCATGAAGATTTTGAAAAGACAAAGGGAAGGGGCTTTACTCCTGTTGTGGATGACCCTGTGACAGAGCGAGTGAGAAGGAACACCCAGGTCGTCAGCGATGCTGCCTATAAAGGTGTCCATCCTCACATCGTGGAGATGGACAGGAGACCTGGAATCATTGTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013339:ENSBTAT00000061339:23
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.743 A=NA C2=0.431
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=19.0),PF0088013=Nebulin=WD(100=41.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATACCCAGGACCAGAAACAGA
R:
CAACAATGATTCCAGGTCTCCT
Band lengths:
270-1249
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development