BtaINT0130615 @ bosTau6
Intron Retention
Gene
ENSBTAG00000007307 | SELE
Description
Bos taurus selectin E (SELE), mRNA. [Source:RefSeq mRNA;Acc:NM_174181]
Coordinates
chr16:38188776-38189711:-
Coord C1 exon
chr16:38189604-38189711
Coord A exon
chr16:38188959-38189603
Coord C2 exon
chr16:38188776-38188958
Length
645 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
GATTTGTTTTCCTTTTTCAGTTG
3' ss Score
10.31
Exon sequences
Seq C1 exon
CTGCCTGTAACCCCACACCCTGCGGCAGCCATGGTGAATGTGTAGAGACCATCAACAACTACACTTGTCAGTGCCACCCTGGCTTCAAGGGCCTCAAATGTGAGCAAG
Seq A exon
GTAAGGCGTGGTCTCAGCTTTTCCTTCACTTGAGATTGTAGGAGCACTTCATGTCCCAGCTGGTTTTGGTGTCAGGTCTGCATGCTTTGCCTTCCCTGGAGCATATGGAGTCAGAAGGAGGTTAAGAGCTGAAGCTGTGAAATCAGATTCTCCTGCGTTTGAATCCCAGATCCACCACTTAGTAGTTATGGCACCTTGACAACAGGGAGGAAAACTCTCAAGTCCCAGGTTTCTCATTGTAAAACAAGGACAGTAGAGTACCAACTTCATAGACTTATGGTTTGGATGATGTGAACAAATGCAGACACATTTTCATGGTGCCTGTTCTTTGCCGAATCCCTTTAGCCATGTACGACTCTCTGCGACTCCATGGACTGTAGCCTGCCAGGTTCCTCTGTCCATGGGGCTCTCCAGGCAAGAATACTGGAATGGGTTGCTGTGTCTTCCTCCGGGGGAACTTCCCAACCCAGGGATGGAACCCAGGTCTCTTTTGTCTCCTGCATTGGCAGACAGGTTCTTTACCACTAGTGCCTCCTGGGAAGCCTGGTGCCTGACGTTTGATAAATAGTAGTTCTGGTTTCCAGGGTTCTTCCCACATGCTACAGGGTGAGAGAGGAGCAGAACTGATTTGTTTTCCTTTTTCAG
Seq C2 exon
TTGTGACCTGTCCAGCACAGAAACATCCTGAGCATGGACATCTGGTTTGCAACCCTTTGGGGAAATTCACCTACAACTCTTCCTGCTCCATCAGCTGTGCAGAGGGCTACCTCCCAAGCAGCACAGAGGCCACTCGGTGCATGTCCTCTGGAGAATGGAGCACTCCTCTCCCAAAATGCAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000007307:ENSBTAT00000009612:4
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:
PF0000822=EGF=WD(100=83.8),PF0008415=Sushi=PU(4.8=8.1)
A:
NA
C2:
PF0008415=Sushi=PD(93.7=95.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCTGTAACCCCACACCCT
R:
TGCATTTTGGGAGAGGAGTGC
Band lengths:
286-931
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development