BtaALTA0019669-2/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000015986 | NDE1
Description
Bos taurus nudE nuclear distribution gene E homolog 1 (A. nidulans) (NDE1), mRNA. [Source:RefSeq mRNA;Acc:NM_001100321]
Coordinates
chr25:14192108-14196656:+
Coord C1 exon
chr25:14192108-14192261
Coord A exon
chr25:14196508-14196510
Coord C2 exon
chr25:14196511-14196656
Length
3 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
GTGGCGATTCTGTCCTTCAGGAG
3' ss Score
7.19
Exon sequences
Seq C1 exon
GGCAGAGAACACCCAAGAGGAGCTCCGGGAATTCCAGGAGGAAAGCCGGGAATACGAGGCGGAACTGGAGACACAGCTGCAACAAACTGAGAGCAAAAACAGGGACCTGCTGATGGAAAACAACCACCTTCGCATGGAGCTGGAGACCATCAAG
Seq A exon
GAG
Seq C2 exon
AAGTTTAAAACACAGCATTCTGAAGGCTACCGGCAGATCTCAGCCTTAGAGGATGACCTTGCCCAGACGAAAGCCATAAAAGATAAACTGCAGAAGTACATCAGAGAGCTGGAGCAAGCCAACGATGACCTGGAAAGAGCCAAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015986-1-4,1-3-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.856 A=NA C2=0.340
Domain overlap (PFAM):
C1:
PF079267=TPR_MLP1_2=FE(65.4=100),PF040127=PspA_IM30=FE(71.8=100),PF063948=Pepsin-I3=PD(92.1=67.3),PF088265=DMPK_coil=FE(91.1=100)
A:
NA
C2:
PF057016=WEMBL=FE(24.7=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACAACCACCTTCGCATGGAG
R:
TTTCGTCTGGGCAAGGTCATC
Band lengths:
108-111
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development