BtaINT0130590 @ 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
chr6:46826596-46828723:-
Coord C1 exon
chr6:46828604-46828723
Coord A exon
chr6:46826737-46828603
Coord C2 exon
chr6:46826596-46826736
Length
1867 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACG
5' ss Score
10.52
3' ss Seq
AAATTGCTACTGTCTTAAAGCAA
3' ss Score
3
Exon sequences
Seq C1 exon
GCATATGTTGAAACAATTAGACTAAAAGATGATGAAATACTCAAGGTACAAACCAAAGAAGATGGAGATGTCTTTATGTGGCTGAAGCATGAAGCTACTCGAGGCAATGCGGCAGCTCAG
Seq A exon
GTAACGATGTGGTCCACTGTCTTGGAAACTGTCTCAGCCCTGATGGACCAGGATACGCTGTGATAACAAGATATCCCAATCCTAGTGACTTAACACAGCACCAGTGTATTGCTGTTCACACTACTGGGGATGCTGGCAGGGGCTGTGCTCTCATAGTTCTTTAGGAGCCCAAGCTAACAGAGGTGTCACCAAAATGTGCTTCCAAAGCTCTTGCCTCAGGGCCACCTGTGACATGTCACAGCTGGCTCCTAACACTTCTGCTCAAATGGGGCACTTCTCACATTTCACCGGCCAGAGCAAGTCAGTTGGTCATTCTTTTTAAATAATTTGATTTACGTATTTATTTCTGGTTCTGCCGGGTCTTTGTTGCTGCATGGGCTTTTCTCTAGTTGCCGAGAGTGAGGGCTACTCTCCAGTTGCGGTGTGCGGGCTTCTTGTTGCCATGGCTTCTCTTGTTGCAGAGCTTGGGCTCTAGGGCACGCGGGCTTCAGTAGTTGTGGTGCAGGGGCTTTGTCACTTCATGGCATGTGGGATCTTACTGGATCAGGGGTCGAACCTGTGTCTCCTGCATTGGCAGGCAGATTCTTTACCACTGAGCCACCAGGGAAGCGCAGTTGGTTACTTTTGACATTGAGTGTTGTCAGACCTGCACCCATTGGAGAGAGAGTCACAGGATTTATGATCAGTCCCAAGACTCCATCAGACATTCTAGTGCATCAGATATATAGATATAATGATATAAATCATTTATATAGGGCGGTTCTTCAGGGTCTTTGTTTACCTTTGGCCAATTATCTGGTTTCTTTTTTCATACTTGAACTACCCTAGGACCCTCCCCTCTGTGTGTGACTGTTTCCAAGATGGATTGAGGCCTATGGGGTGGCCTTGGCATCACATGTTATGGGGTGGTGCCTCCTCCTTTTGATCCCCAAGGAGCTTTCTGCACATGTGCAGTGTCTCTCTTACCCTAAGAATGGAAAATATATGACCTAGTGATCCTTTACTCAAACAGGGGTTAGCCCCTCTCTTCCTGCCTTGTCTGTTCTCTTAAGGTGTCCTCAGGAGACAAAGCCTGGCTATTTACCTTGTTTCTGTTGTTAGTTCTGTTTCAGTATGCAGACAGGAGGCTGATTGTAAATATCTAACCAGGAGCCCACCTACCTCCTGTCTCAGGAAATGCAAACAGGAGGCCAGCTGTAAATGCCTAGCCTGGAGCCCATCTATCTCCTGCCTCATAGGGAGATGCCCTGACTGCCACAGATGTGCACAGGCGTGCATGCCTTACACTGGGCCCAGAAGACAGTCAATGACTCCCAAAGGGGAGGGCATTTCAAGAGAGGAGACAGTATGGTTGCTGATCCATCAGCTCTGACCTGGGTATAGTACATTCATTCACATACACACACCCACATCCCACTGATACACATCGTTGTGTTAATAACTTGTATTTAACCCAGTACACCTTTAGGGCTCTGGTCCCCAGTAGAAAGATAGCATGTGTCTACCTAAGTCTTGGTTCTCGATATAAAAACATTTTAAACTAGGTTTGCCTTACCCTCTTTAAAAATCTCGTATGTTAAGTATTAGGGCTTCCCAGGTGGCTCAGTGGGTAAAGAATCCTCCTGTGATGCAGGAGACACAGGTTCACTCCAGGAAGATCACCTGGAGGAGGCATGGCAACCCACTCCAGGATTTTTGCCTGGAGAATCCCATGGACAGAGGAGCTTGGTGGACTACAGTCCATAGGGTCGCAAAGAGTTGGACACAATTGAGCCACTAAGTGCGTGCACACACACACACATACACACACACACATGTTAAGCATTTCACAGGAAAGTCATTGTTTTAAATTGCTACTGTCTTAAAG
Seq C2 exon
CAACGGTTGGCCCAGATGCTGTTCTGGGGCCAGCAAGGTGTGACCAAGAACCCGGAAGCGGCTATCGAGTGGTATGCCAAGGGTGCCCTGGAGACTGAGGACCCCGCATTAATATACGACTACGCCATTGTATTATTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000002299:ENSBTAT00000002970:11
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=PU(8.6=7.5)
A:
NA
C2:
PF082387=Sel1=PD(85.7=63.8),PF082387=Sel1=PU(27.3=19.1)
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:
TGATGAAATACTCAAGGTACAAACCA
R:
TGAATAATACAATGGCGTAGTCGT
Band lengths:
230-2097
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]