BtaINT0130613 @ bosTau6
Intron Retention
Gene
ENSBTAG00000007307 | SELE
Description
Bos taurus selectin E (SELE), mRNA. [Source:RefSeq mRNA;Acc:NM_174181]
Coordinates
chr16:38190720-38192018:-
Coord C1 exon
chr16:38191934-38192018
Coord A exon
chr16:38191107-38191933
Coord C2 exon
chr16:38190720-38191106
Length
827 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGT
5' ss Score
10.47
3' ss Seq
TTTCATGTTTCCCCCCTTAGTGC
3' ss Score
9.68
Exon sequences
Seq C1 exon
AAAAGCATTTTCAAGTCTAATCTTTGGATCAAAAGAACTCTTGAAGTCATGATTGTGTCACAGTATCTCTCTGCTCTCACTTTTG
Seq A exon
GTAAGTCAATGTCAGTTGATAGACTAAAATTTCTTATCCTTAGCACTACTGGCATTTTGGACCAGATAAGTCTTCCTTGGGGTGGGCTTCCAAGTGTAATGTAGGTTGTTTAGCAGCATCCTGGGCTCCTCCTCATAATGTGTTGTGCCCTGGGCTAGGAGCCATTTACCTCTTTGTGTCTCAGATCCCTTAGGTATAAAGAGTGATCAAAAGTAATCTATTTCCCAGAGGCCTTTTGAGGATTCAATATCATGGCTCATGTAAAGTGCCTCAGACAGTGCTTGATGGTGCATATTTAGTGCTCAAAAAAGCTTAGTTATTCTATTATTCTACTATTAGGTAGGTGTATTGATAGGTTATAGTGGGTAAGCACCAAGTGGAAGGTCAATTACAAAAGAGAAACGCAGTAGATGGTAGTGTCTCCATTCGTACCCATTTTTACTTTGGAAAAAGTTTTTCCAAGAAATTCTTACTTTGGAAAAACAATTGAATCATCCCAAAGGCCACTAGGGGACTTCCCTGGTGGCTCAGCAATAAAGAATCCACCTGCAATGCAGGAGACGTGGATTCGATCCCTGGGTCAGGAAGATCCCCTGGAGAAGCGCATGGCAACCCACTCCGGTATTCTTGCCTGGAGAATCTCATGGACAGGAGACTGGCGGGCTACGTCCATGGGGCAGCAAAGAGTCAGACACGACTGAAGCCTCTGAGCAGCATGCACACAAAGGCCACTAGATGCCAAAAATATGACAACAAAAGATTCAGATAACAGACTCAAACCACAGCAGGGCTAAACTTTCCCATTCCTTTCATGTTTCCCCCCTTAG
Seq C2 exon
TGCTTCTCCTGTTTAAAGAAAGTAGAACCTGGTCTTACCATGCATCCACGGAAATGATGACTTTTGAGGAGGCCAGAGATTATTGCCAGAAAACTTACACAGCTCTAGTTGCAATTCAAAACCAGGAAGAGATTGAATACCTGAACTCCACATTCAGCTATTCACCAAGTTACTACTGGATTGGAATCAGAAAGATCAACGGTACATGGACCTGGATAGGGACCAATAAGTCCTTGACCAAAGAAGCCACAAACTGGGCTCCAGGTGAACCAAACAATAAGCAAAGTGATGAGGACTGTGTAGAGATCTATATTAAGAGAGAAAAAGACTCAGGCAAGTGGAATGATGAGAAATGCACCAAACAGAAACTCGCCTTGTGTTACAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000007307:ENSBTAT00000009612:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.069
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0005916=Lectin_C=WD(100=86.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAAGTCATGATTGTGTCACAGT
R:
ACACAGTCCTCATCACTTTGCT
Band lengths:
345-1172
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development