BtaINT0104835 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021896 | NUP214
Description
nucleoporin 214kDa [Source:HGNC Symbol;Acc:HGNC:8064]
Coordinates
chr11:101365380-101366925:+
Coord C1 exon
chr11:101365380-101365839
Coord A exon
chr11:101365840-101366752
Coord C2 exon
chr11:101366753-101366925
Length
913 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGT
5' ss Score
8.4
3' ss Seq
ACTCGGGCTGCCGTTTTCAGGTT
3' ss Score
9.41
Exon sequences
Seq C1 exon
GAAGTATTCCCACTACCCCCACCTCCCCTCAGGCCCCGCAGAAGCTCGATGTGCCGGCCGCCGCGGCGCCTGCCTCTGTGCTGCCTTCATCACAGGCCGCCCCCACCTCCACCTTCTCTCTGCCATCAGCTGTGTTCTCCTTTGGTTCTTCATCTTTGAAGTCCTCTGGTTCTGTCCCTGGGGAGGCTCCTCTGAGTTCCAGTGGCTCTGACGGGGCCAAAGCAGCCCTGGTCTCTGGCACTTCGCCCTTCCCTTTTGCTCCTCCTTCTCAAGCCTCCCTCGCGCCCACGCCTGTGGCCTCTCCCATGATGCCCTCAGCTGCTTCATTCTCCTTTGGATCATCGGGTTTTAAGCCTACCCTGGAAAGCACACCAATGCCAAGTGTGTCAGCTCCAAATATGGGAATGAAGCCCACCTTCCCACCGTCAGCTCCTGCAGTCAAGGTCAACCTTAGCGAAAA
Seq A exon
GTGAGTAACACTTCAAGTTTGACAGGTAGAGATAGCGCTTGTTTTTCACTTTCATGTGGGATCTTAGTTCCCTGACCAGGGATCTAAGTTCCTCACATTGGAAGGCAGATTCTTAACCACTGGACCACCAGGGAAGTCCTACGTGTATCTTATTTTTTCACTTCTGTACCTGCTTGTTTTGTTCTCACCACCAGAATATAAACCTTTTGAGAAAAGTAGCCCTTATACCTTGTACCCTTTCACATAATTGCCATTGAGTATAAATACTACCAGCTTCCCCCTCCACTCTTCTGTATCTTCCCTTGTTACTGTGGAGGGGATGCCGGCCGCTGTCATTGTTGATAATAAGTTGTCATGCAGCCACTTCATTCTGAAGGTTGCCTAGTATTCCATTGTGTAACACTGATTTATTTCACTAGTCATCTGATGCTGTATACTTATATTCTTTACAGACATTTGCTCTTCTAGGTGAAACTTACTTCCCCTTCCTAGCAGACCGTCAGCATCCCAGAGATAGTAACCTGCTCTCATCTTCCATTTTCCTTCCCCAGAGATGATCATCCCACGAGTCCTCAGTAATTTCCTTGACAAAGGGAGGGTACTAAACTCTCCAAAGTCCAGTTGAGTCCCACCTTCTTTTTTCACTCGGCCTGATAGGATAGACAGTAAATGTTTTATATCATGGTAAACTTAGTTTTGTCATCATATTAAGTATTATTTTATATTTTCATTCCAAATAAGCAGATGACGAATGTTTCCATGCAGCCTTCACCTTTTGTAAGAAATAGCTAAACATTTGCCCTTCCTAAAGGCAGAAGAGTCTAGGAAGTTACCTTTTGATGATCACTCATTATGGTTGCGAACAATCCCACAGCAGCAGGCTGTTCTGACCCACTCGGGCTGCCGTTTTCAG
Seq C2 exon
GTTCACAGCTGCAGCCACCTCGGCTCCTGTTCACAACTCACAGAGCACAGCCTCGATGCTGCCCTTCTCGGCCTCCAAGCCGGCTTCCTCTGGACCTCTCAGCCACCCCGCGCCCCTCTCGGCATCATCCAGTTCCTTGTCATCCAAGTCCTCAGCCACTCCGTCCGCATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021896:ENSBTAT00000029190:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.708 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGCTCCTCCTTCTCAAGCCT
R:
AGGAACTGGATGATGCCGAGA
Band lengths:
342-1255
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development