BtaINT0104865 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021896 | NUP214
Description
nucleoporin 214kDa [Source:HGNC Symbol;Acc:HGNC:8064]
Coordinates
chr11:101359619-101361745:+
Coord C1 exon
chr11:101359619-101359745
Coord A exon
chr11:101359746-101361583
Coord C2 exon
chr11:101361584-101361745
Length
1838 bp
Sequences
Splice sites
5' ss Seq
TCAGTAAGT
5' ss Score
9.14
3' ss Seq
TTGGTTTTCTTTTTTAACAGCTG
3' ss Score
9.3
Exon sequences
Seq C1 exon
AATAGTTGGGAATCTTGGCTGTTGGAGGACTCTAGTCGAGCTGAACTGCCTGTGACAGACAAGAGTGATGATTCCTTGCCCATGGGAGTTGCCATAGATTACACTAACCAAGTGGAAATCACCATCA
Seq A exon
GTAAGTATAGTCTGTCATAGCCAAGCTACATGCAGAAATAGTCTTCTTCCCATCGTGGTTAATATTCAAATCCAGCTCTACATTTTCACGATGGAACTTTCTCTGCCATGCGCTTTAGCTTGTCGTAGCGTGTCTGTGTAAAGAGTGAGACAGAGTGCACTATACCACACTCGTCTGATTTAAGTGGATATTCATTGACCGAGGTCACACACTCTGTGTGTCTCTGTGTATGTAAGAATATGGCTAAAATACAGAACACCGACTTCATAACCTTGTTTCTTTGCCCCTCCCGGTTTCCCAGGGCCTCCCAGGCAGGTGGTGTATCCCAGTACTTGGTTCGATGGCTTGGATAAGAAAATGGAGGCCTCAAGCACAGACTTCCAAATGGGGCCTGAGCATGTGCTCTGAGTCTGTCTTCTCCCCTGCTGATATCTTGGCAGGGCTGCAGTCCCATGAAATGTGAACGTGAGAAACGGATCTAGAGAGCAAGCTAGTGGTTGCGAGCAGGGAGAGGGAAGCCGGGAGGGGCATTATAGGAGTTGGGGAGCAGGAGGTACAAACCGCTGGGTGTGAGACAGACTACAGGGAGGCGGGGCACGCGGCCAGTGTAAGTGGGGTGTAACCTGTAAAACTTGTGTAAAGAATTAAGAGAATTAAAAAAAAAAAAGAGCCAAGGAGACAGTATAATGAAAAGGCAGCGGAATGGAGTGGAAAAAAAATCTATAAAGCATGGATCTGATACGGGGTTAATACCCAAAATATATAAGGAACCCATGCAACTCAATAGCAAAGCGAAACAAATAACCTGATTAGGAAATGGACAGAGGACCTGAATAGACATTTTTCTAAAGAAAGCATACAGATGGCCAACGTACATTAAAAGGTGCTCGACATTACTAATTACCAGCATAGGGAACTCTGCTCAATACTCTATAATGACCTAGTGGGAAAGCAATCTAAAAAAGTGGATGTGTGTGTGTATATATATACACACATATATATATGACTGATTCACTTTGCCATACAGCAGAAACTAATGCAACGTTGTCAATCAGCTATGCTCCAATAAAAACTTTTTAAAAGTTTTCACCACACACACAAAATGGTAACTACATGAGCTGAGCGATGTGTTTATTAGCTTGACTGTGGTAGTCATTTCACAGTATGTGTGTCCTTCAGATCATGTTATACACCCTAAGTACATAGCCATTTGTATTTGTCAGTTGTATGTGAATCAAAGTGGGAATGTGTATATATATTTTTAAAAAGGCATATACTATGTGCCTCATTTTAGAGAGGTATCTGCATCAGGCACCACTGAGTCCCTTGTCCTTTCCCTGACCAGACTGTTTGGTCTGATTCACTCAGTTACTTTTGATTCTCACGAAGACTTAATTGACAACATATGTGCTTATCATTCAGCTGTGAAGGACTGTAAAGTAATTGGACTCACTTTGCCATGTCCTTCTGTGTGTTTTCCCCAAGAGTCTCTTCTGTCATTTTTCCTGGAGACTCCTGTGTTGGTCGGGGGAATGCTGAACCTGTCTCCCTGACACCGGGACACACATGAAAATCAGAGCTTTGGGAGAGTCAGAGCCACTATGCAACTGCTGGTGTTGCTCTGTGCAGCTGGCAGTACACTGGCTGGCTGATCGAAGCTGTCCTTTAAAGAGCAGATTCATAAGGGCTGTTCAGATCCAAATCAGAGTGAACCAACCGCGGCTTGTGTGCAGATGAGTCCAGTGAGACCCCTTGCACTTCAGGCTGTCTTCGCCTCCCACGCAGGGGCCCTTCCGTTGACTTGGCTCTTCTCGTACCTTGGTTTTCTTTTTTAACAG
Seq C2 exon
CTGAGGAGAAGACTCTTCCACCTGCTCCAGTGCTTATGTTACTTTCGACAGATGGTGTGCTTTGTCCTTTTTACATGATCAATCAAAATCCTGGCGTAAGGTCCCTCCTCAGGACACCGGAGCGGCTCTCGTTGGAAGGAGAGCGGCAACCCAAGTCATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021896:ENSBTAT00000029190:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.256 A=NA C2=0.400
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTTGGGAATCTTGGCTGTTGG
R:
CTGATGACTTGGGTTGCCGC
Band lengths:
286-2124
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development