BtaINT0130619 @ bosTau6
Intron Retention
Gene
ENSBTAG00000007307 | SELE
Description
Bos taurus selectin E (SELE), mRNA. [Source:RefSeq mRNA;Acc:NM_174181]
Coordinates
chr16:38184738-38185568:-
Coord C1 exon
chr16:38185392-38185568
Coord A exon
chr16:38184849-38185391
Coord C2 exon
chr16:38184738-38184848
Length
543 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAAG
5' ss Score
5.73
3' ss Seq
TCTACCCCCTGTTTCCTTAGCTC
3' ss Score
8.34
Exon sequences
Seq C1 exon
TGGTACGATGTTCACGTTTGGACGTTTCTGGAAAGCTCAACATGAACTGCAGTGGGGAGCCCGTGCTTGGCACTGAGTGTACGTTTGCATGTCCTGAAAGATGGACGCTCAATGGCTCTGTAGTGCTGACCTGCGGTGCTACAGGACACTGGTCTGGGATGCTGCCAACCTGTGAAG
Seq A exon
GTGAAGCACTGAGTGATGGTGGTTGTCTGGGGCGGGGGAATCAGAGAGAAGAAAGCGAGCAAAGAAAGGAAGCTATCTGGCTACAAAAATGAACTATCCAGTATATCCAAACCAGGAAGGTCAGAAAGGTTACCCAGGTTAACATTTAAGGGATGGATATTTCATTCTATGGGGAAGAGAGAAAACAGGAGTGACATGCTGATGGAATTTTGATTATTGGAGAAAGGAGAGCTAGTGGAAGAAATCGGAGGGGAAAGGAAAATGAGTGAAAAAGAGAGAAAGAGAGAGAGAGGTTAATCAAGGTGTGCTGTAAAAGCTTGGCAAGTTAGAGCTCTGTCTGACCGTGCTGGGAGATAAGCTCACAAAGAGGTTTGGGCTGATCTCAAAGGCCTTTAGTACCATGTCTCTGCCTCATGTATTGGACTAGATGACTCTTCTTCTTTGCACACTATAACCAGTGTACAAAGAAAAGGGCAAATGGACAGAACAGGAAGACTTTAAATTTAATTTCTTCTCATGACTGTCTACCCCCTGTTTCCTTAG
Seq C2 exon
CTCCGACTGTGTCCCAAACTCCCTTGGCAGTTGGACTTTCTACTGCTGGAGTCTCCCTTGTGACAATACCATCATTTCTCTTCTGGCTTCTGAAACGCCTTCAGAAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000007307:ENSBTAT00000009612:8
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=WD(100=91.7)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGTACGATGTTCACGTTTGGA
R:
GAAGGCGTTTCAGAAGCCAGA
Band lengths:
279-822
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development