Special

BtaINT0130616 @ bosTau6

Intron Retention

Gene
Description
Bos taurus selectin E (SELE), mRNA. [Source:RefSeq mRNA;Acc:NM_174181]
Coordinates
chr16:38187478-38188958:-
Coord C1 exon
chr16:38188776-38188958
Coord A exon
chr16:38187664-38188775
Coord C2 exon
chr16:38187478-38187663
Length
1112 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGT
5' ss Score
11.01
3' ss Seq
GTGTTCTTTCAAATCCCTAGTGG
3' ss Score
7.21
Exon sequences
Seq C1 exon
TTGTGACCTGTCCAGCACAGAAACATCCTGAGCATGGACATCTGGTTTGCAACCCTTTGGGGAAATTCACCTACAACTCTTCCTGCTCCATCAGCTGTGCAGAGGGCTACCTCCCAAGCAGCACAGAGGCCACTCGGTGCATGTCCTCTGGAGAATGGAGCACTCCTCTCCCAAAATGCAATG
Seq A exon
GTAAGTCTCTCTCAGAAAGCATAGAGCATTCTCCAATTCATCTCTCACCCCCTTGGTTCCCTGGTGGCTCAGACGGTAAAGCGTCCGCCTGCAATGCAGGAGACCCAGGTTTGATCCCTAGGTGGGGAAGATCCCTGGAGAAGGAAATGGCAACCCACTCCAGTACTCTTGCTTGGAAAATTCCATGGACAGAGGAGCTTTGTAGGCTATAGTCCATAGGATCGCAAAGAGTCAGACACGACTGAACCACTTCACTTCACTGTGCCATTTTCAGCACTTCAGGGAAAGTTCCTTCTAAACTTATCCTAATTAAACAAGTTCTAATTCAACTTGTTCTCTCAGCCAGTGTATATAAGGCCAATATGGTACCAGCTGGCTTTGAGAAAAATTTTGATCCTGTATTTGACATGAGTGTTTCTGAGGCTCTCATGATATGTAAGGGAACACAGAACTGTGGAACTGCCCCCTCAAAATCTGAATGACTTTCTCTCTCCTTTCTCTGTTTAATTTCATCCATGCAATTGGACCATTGAAGATCATGATAACCAAGTACCCTCAGTATATCCTTTTCTCTCTGTTTTATCTTCCTAGGTCAAAGACAGAAAAATTCTTTCCTCCAGGTCTTATTGTTTAGTCGCCAAGTCATGTCCGACTCTTTTGTGACCCCATGGACTGTAGCTCCTCTGTCTGTGGGATTTCCCAGGCAAGAATACTGGAGTGGGTTGCCATTTCCTTCTCCATTCTCCAGGTCTTGCTGGGCTAAAATAAATGAATGTTCTGTGTATGCTGGGATTTGTTTTTTTTAATCACAACTAGTCATAAATCCTGATCTAGAATCTGCTATTTTCCTTTGTTTTTGCCTGTTGTAAAATAAGCCAGGTAAAACGGTCAGGAACTACTTAGCATAGTCAAAGTCAATCAGAGAGGATGAAAATATCAAGAAAAAAACATAACAACTTTATTGTGGGTGCGCATGTCCTCAGAAGTTAACCTCGGGCTTTGAGTTCTACCCTCTGAAGGTAGTTTCCTTACTGTGTTATAAACTCCAGTTCAAGAAGAAGTGAATATCTCACTCTTCTTTAAAATTTCATGGTGTTCTTTCAAATCCCTAG
Seq C2 exon
TGGTTAAGTGTGATGCTTTGTCAAATCTGGACAATGGAGTGGTAAACTGTTCCCCAAACCATGGAAGCCTCCCATGGAACACCACCTGTACGTTTGAGTGTCAGGAAGGATATAAACTCACTGGACCCCAGCACCTACAGTGTACCTCCTCTGGGATTTGGGACAACAAGCAGCCAACATGTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000007307:ENSBTAT00000009612:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact

ORF disruption upon sequence inclusion

No structure available
Features
Disorder rate (Iupred):
  C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):

C1:
PF0008415=Sushi=PD(93.7=95.2)
A:
NA
C2:
PF0008415=Sushi=WD(100=92.1)


Main Inclusion Isoform:
NA


Main Skipping Isoform:


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
Associated events
Conservation
Chicken
(galGal4)
ALTERNATIVE
Chicken
(galGal3)
ALTERNATIVE
([1])
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCACAGAAACATCCTGAGCA
R:
TGGCTGCTTGTTGTCCCAAAT
Band lengths:
346-1458
Functional annotations
There are 0 annotated functions for this event


GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]


SPECIAL DATASETS

  • Pre-implantation embryo development