BtaINT0100285 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015986 | NDE1
Description
Bos taurus nudE nuclear distribution gene E homolog 1 (A. nidulans) (NDE1), mRNA. [Source:RefSeq mRNA;Acc:NM_001100321]
Coordinates
chr25:14214134-14215226:+
Coord C1 exon
chr25:14214134-14214285
Coord A exon
chr25:14214286-14215113
Coord C2 exon
chr25:14215114-14215226
Length
828 bp
Sequences
Splice sites
5' ss Seq
AGGGTCAGT
5' ss Score
5.85
3' ss Seq
TTGGTTTGCTCTGTCTGAAGGTT
3' ss Score
6.99
Exon sequences
Seq C1 exon
GCCCTGGAGTCCAAACTTGCTTCCTGCCGGAACTTCGTGTACGATCAGTCCCCAGGCCGAGCCAGTGGCCCAGCCTCAGGGCGGGGGAGCAAAAACAGAGACAGCGTGGACAGGCGGCCCGGCGGCAGCAACGTGCCTCTCGGTGACAAAGG
Seq A exon
GTCAGTTCCTTGCGCTGTTCCCCCTCGGTGTTGGGAGAACCCGTGCACTCCAGCCAGAAGCCTCTGACCCCCGACCAATAGCCGTGTTTTTGAAAGTTGCAGGAATTATGTCAGCATATCTCTCTATCCCTTAAGGCCGAGTTAGTTGATATCTTCTGGTTTGGGCAAATGGCCAGGAAGAGGGTCATTTTTATTGACTCTACAGCCCCAGCTCCCAGTCATGCTGTGAGAAAGCCCTTTGTATAATCACTTATTTGCGACTCAGGCTTCAAACGCTGCTCTGCTTCCCCCAGAAGAGGATTTGATTTTTTTTTTTTTTTAAACCCTTTAGAACCTTCAGGAAACTAAATCAGCCAGACTGGATTCCTGAAGCCAGTCACCGGATTGGAAAACACAAACCTGACCTCTAACAGCTTCATTTATTTTCTGGCCTGAAGAAAATCAGGGCGGCCTCCAGATTCTAGAATTTCCTAAGATGTGCCACCATCTCACTGGCCCCCGGGCCACGTAGATTTGGGGTGGTCAGTGGCAGACAGAGGACAGGAGAGGAAGAATTTGTTTTCCCCAGCATGCACATAACTTCTGGACCTTTAGCCGGGGCTGTTCTTTGGAAGGTCTTCTGCGACTGGGCTTTTGTTGTGGCTTTGGGGAAGGGCCGTGAGCGCTAGATGGCCAGTGTCCTTTTCTTCATTTCACAGGAGAGAAAATTGAGACCCAGTGAGACAGTGCTCCCGACCTTGATATTCACCCTTGTAACTTGGTGGGCCCCATGCTACCCAGCCTAGAACAGCTGTAATGTCCGCTTAACTTGGTTTGCTCTGTCTGAAG
Seq C2 exon
GTTGGGAAAACGCCTGGAGTTTGGGAAGCCGTCGTCGAATGTTTCCTCACCGTCGCTGCCGTCAGCCCAGGGTGTAGTCAAGATGTTGCTTTAGGAAAGCCACGGAAGCCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015986:ENSBTAT00000021265:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.765 A=NA C2=0.677
Domain overlap (PFAM):
C1:
PF048808=NUDE_C=FE(25.1=100)
A:
NA
C2:
PF048808=NUDE_C=PD(8.0=50.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCCTGGAGTCCAAACTTGC
R:
GGCTTCCGTGGCTTTCCTAAA
Band lengths:
262-1090
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]