BtaINT0130614 @ bosTau6
Intron Retention
Gene
ENSBTAG00000007307 | SELE
Description
Bos taurus selectin E (SELE), mRNA. [Source:RefSeq mRNA;Acc:NM_174181]
Coordinates
chr16:38189604-38191106:-
Coord C1 exon
chr16:38190720-38191106
Coord A exon
chr16:38189712-38190719
Coord C2 exon
chr16:38189604-38189711
Length
1008 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGG
5' ss Score
8.76
3' ss Seq
GCGGATTGTCTTTTCCACAGCTG
3' ss Score
7.73
Exon sequences
Seq C1 exon
TGCTTCTCCTGTTTAAAGAAAGTAGAACCTGGTCTTACCATGCATCCACGGAAATGATGACTTTTGAGGAGGCCAGAGATTATTGCCAGAAAACTTACACAGCTCTAGTTGCAATTCAAAACCAGGAAGAGATTGAATACCTGAACTCCACATTCAGCTATTCACCAAGTTACTACTGGATTGGAATCAGAAAGATCAACGGTACATGGACCTGGATAGGGACCAATAAGTCCTTGACCAAAGAAGCCACAAACTGGGCTCCAGGTGAACCAAACAATAAGCAAAGTGATGAGGACTGTGTAGAGATCTATATTAAGAGAGAAAAAGACTCAGGCAAGTGGAATGATGAGAAATGCACCAAACAGAAACTCGCCTTGTGTTACAAAG
Seq A exon
GTAGGGAGTCTGTGGCAGCAGTGGGAGGGAGATGTTGTGTGTGAGCATCTTGACAGATTGTTGACTGTATACAAAAACTAATCTCTATTGTGTGGATTTTATGTTCTAAAAAGATACAGTTTTTAAACATTCTATTTGAAATGTTTAAACACCTGAAATTTGCCTCTTTTTGTTTCTTTGTGTGAATGTAGTTAAGAATGTATTTATTTATGTATGGTGGTGATTTAGTTGCTAAGTTGTGTCTGACTCTTGTGCCCCATGGACTGTAGCCCACAAGACTTCTCTGTTCATGGGATTTCCCAGGCAAGAATACTGGAGTGGGTTGCCATTTCCTCCTCAAGGGGTCTTCCCCATCCAGGGATTGAACCTGAGTCTCTTGTTTTGTTGGCAGATTCTTTACCTACTGAGGCGGGGGGGAAGCCATAAATAAGTATAGACCTAAATATATGCATATATGTATATATAAATATAGGCTTCCCCAGTGACTCAGTTGGTAAAGAAACCACCTGCAATGCAGGAGACTCAGGTTCAATCTCTGGGTGCGAAAGATCCCCTGGAGAAGGAAATGGCAACCCACTCGAGTATTCTTGCCTAGAGAATCCCATGGACAGAGGAGCCTGGCAGGCTACAGTCCATGGAGTCTCAAAGAGTCAGACATGACTTAGTGACTAAACCGCCACATACTTATATATAGTGTGTATGCACACGTATAACACACTTTTTAGTTACTTGTTATTTATTTGCAGTAGGATAATTCTCTTTAGAATTTGTGATAAAGTGAATTTTCTATTTCGGGTGCCAGTTACAGTTCTACCTCTGATATTAACATCAGGGTTTGAAATTTTTGAGCTTAAAACTCAGCTTGGGCATTTCATCAAGCACCTCCATTAAAATCTCTGACACTCTGTATCATTGGTGACATCCCTGTTACACATCATTGATCCTAAATTCAAAGAAACTCCGTTGAAGCATAACAACAATAGTTATCGCGGATTGTCTTTTCCACAG
Seq C2 exon
CTGCCTGTAACCCCACACCCTGCGGCAGCCATGGTGAATGTGTAGAGACCATCAACAACTACACTTGTCAGTGCCACCCTGGCTTCAAGGGCCTCAAATGTGAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000007307:ENSBTAT00000009612:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.069 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005916=Lectin_C=WD(100=86.2)
A:
NA
C2:
PF0000822=EGF=WD(100=83.8),PF0008415=Sushi=PU(4.8=8.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCCAGAAAACTTACACAGCTCT
R:
TACACATTCACCATGGCTGCC
Band lengths:
348-1356
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development