BtaINT0130594 @ bosTau6
Intron Retention
Gene
ENSBTAG00000002299 | SEL1L3
Description
Bos taurus sel-1 suppressor of lin-12-like 3 (C. elegans) (SEL1L3), mRNA. [Source:RefSeq mRNA;Acc:NM_001206556]
Coordinates
chr6:46814814-46816404:-
Coord C1 exon
chr6:46816277-46816404
Coord A exon
chr6:46814898-46816276
Coord C2 exon
chr6:46814814-46814897
Length
1379 bp
Sequences
Splice sites
5' ss Seq
TGTGTAAGA
5' ss Score
3.68
3' ss Seq
CTCCTCTGTTTCCTTTATAGATG
3' ss Score
11.94
Exon sequences
Seq C1 exon
ACATTAGCTGGTGAATATTTCCATAAGGCTGCACAAGGTGGACACATAGAAGGAACTTTGTGGTGTTCTCTGTACTATATCACAGGCAACCTGGAGACGTTCCCGCGAGATCCCGAGAAGGCTGTTGT
Seq A exon
GTAAGAACCTATCAGATGCTGCTTGTGAAGGGAAAGCTGTATACTGTGTTCACCACTTCTGAGAAAATAGAGTTCTTTTTTCTTTTATTCTTTTTTTTTCACTTTTAAAATGTAATTTTTATTGGTTACATGCACAAAAAAAGAGCCAAATTATTTGAGGAGGCAAAAATTTAAAAAGTAATAATTTGACAAGAAAAATAGGAAATCTTTATCCCCCACCCGCATACCATTTCCTGCTGCCTAGAATAAATCACTTTTCGTGCACTCTTGCCTGGAAAATCCCATGGATGGAGGAGCCTGGTGGGCTGCAGTCCATGGGGTCACTAGGAGTCGGACACGACTGAGCGACTTCACTTTCACTTTTCACTTTCATGCATTGGAGAAGGAAATGGCAACCCACTCCAGTGTTCTTGCCTGGAGAATCCCAGGGACGGGGGAGCCTGGTGGGCTGCCGTCTATGGGGTCGCACAGAGTCGGACACGACTGAAGCGACTTAGCAGCATCAGCAGCATGTTTTATTAATAATTATTTCTCTTTTTATTTGCCTCTATGTCTAAATAACATGCTTAAATCACCATTTCTTATTATACTCACTACAGACTTTGTCTAATGATGTGTCACTGGGAAAAGACAAATATATAAATAGTTCCTTCACTCTGCCGCTTCTGACTGCCCCGCATGTTCACACTTCCTGCCTTCTCCCATCTTCCCCATGAGTACATCATCATTTTGCTTGGATTGGTATCAGGGTTCATATTATTGGATTTGCCAGAAAGTTCTTTTGGCCAACCCAATATTTTTACCATTTAATGCTACTCACAGCTGACCACGTAGTGTGCTATGACTACTCTTTCTTGCATAACTTTTTGTTTTCTATGGAATACTACTACTAATTATTAATTTGCTTAGCTCTCTGTGTACGTATCATTTCCTATGTACTTGATGTTGACATTCTCCTTGAGTTATCTAAATCTCCTCTCAGTATATCTACACCTATCAAGTACTCTGTTCATTTAATCTTCTTGGCAACGTCTCTTCTCTTTGTTCAGGGAGAGCTGTCTTCCTGCTATTGACTTGTTAGAATTCTTGATTCACGCTATCTTTTTCCATATTGGTAGACTCTTTTCATTAAGCACTTTTCACATCTTTGTTTCAAAAAATGACAACACTTAAACATTCATTATAAAGGGCACTGAACTCAAATGCTCCCAAAGTATATCTCTCTTTGCCTTCTTAACATTCAGATCTAACTTGTGGCTCCATAAAAATTCTAACAAGCAAAATATTCCCCAAGTGAGATTTATTGAATTCACATGAAGTAAAAAGAAATTATTTAATTTGCCGCAGTTTGGATATTTTCTCCTCTGTTTCCTTTATAG
Seq C2 exon
ATGGGCAAAGCACATAGCTGAGAAAAATGGCTACTTGGGCCATGTCATTCGCAAAGGCCTCAATGCCTACCTGGAGGGCTCGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000002299:ENSBTAT00000002970:15
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:
PF082387=Sel1=PD(35.9=32.6)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCTGGTGAATATTTCCATAAGGCT
R:
CACGAGCCCTCCAGGTAGG
Band lengths:
207-1586
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]