BtaINT0135572 @ bosTau6
Intron Retention
Gene
ENSBTAG00000007650 | SLC38A11
Description
Bos taurus solute carrier family 38, member 11 (SLC38A11), mRNA. [Source:RefSeq mRNA;Acc:NM_001031760]
Coordinates
chr2:31426808-31427706:+
Coord C1 exon
chr2:31426808-31426878
Coord A exon
chr2:31426879-31427544
Coord C2 exon
chr2:31427545-31427706
Length
666 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
3' ss Seq
CCCCCCCCCTTGTATTGCAGCAT
3' ss Score
10.15
Exon sequences
Seq C1 exon
ACCAAAAACAGAAGATGCTTGGATATTTGCAAAGCCCAACGCCGTTCAGGCTGTTGGTGTGATGTCATTTG
Seq A exon
GTGAGTACATGGTTTCCAAGGTCCTTTCTCAACGTGGGGTCTTCTGTACCATGAAAAAGTGCGTTGCCTCGTATTTGTGTCTGGAAAGCAGATGTCCTGTTTTAGACTTCCTATTAGCAGCGTATGATCCAGTTTGTGCCAACATAAAATTAGGCACAAACCATTCTCACTCATCACTAAAATTTGCTTCAATTTTAACAAGTCTTTTCCTCATGCAGAAAACTCATTAAAGTCTTGTTTCTTAACTTGAAAATCTAGCAAGTGTTAACAGACTTATTCCTTGCACACAAAGTATTGTGAATTGGCCAGGAGTCTAGAGTGACTCTGTTATATCCCAGATGGGAAAGGAAGCCCTGGGCTGAAAATATGGTGTTGTTTAGATTTCCTTTAAGATTGGAAAGGCCAGTAGGAAGTGGGAGAGAAAGTTGGATAGGCCTGGTTTATATCAAGAGTGACATGAAAAGATCACATAAGCCTAATACAAATGAAATTTCTCATTCCTACAGCTGTTAGAAAGATTATTTCTGGCATCTCTAGTAAATTAGTATATTTGAACTTCAATTCATTAGTATTTCAAAGTAGCATATGTCTCTGAATTTTCCAAGAGAAAAGGACAACTATGTGATTTGCTTTAATAATGCTTTTTCCCCCCCCCTTGTATTGCAG
Seq C2 exon
CATTTATTTGCCACCATAACTGCTTCTTAGTTTATGGTTCTTTGGAAGAACCTACAGTAGCTAAGTGGTCTCACATCATCCATGTGTCTACCTTGATTTCTGTATTTATCAGTATTCTCTTTGCTACGTGTGGATACTTGACATTTACTGGCTACACCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000007650:ENSBTAT00000010065:8
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:
PF0149013=Aa_trans=FE(6.2=100)
A:
NA
C2:
PF0149013=Aa_trans=FE(13.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCAAAAACAGAAGATGCTTGGA
R:
TGGGTGTAGCCAGTAAATGTCA
Band lengths:
231-897
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]