BtaINT0022836 @ bosTau6
Intron Retention
Gene
ENSBTAG00000003330 | ATL3
Description
Bos taurus atlastin GTPase 3 (ATL3), mRNA. [Source:RefSeq mRNA;Acc:NM_001098978]
Coordinates
chr29:42618151-42619036:-
Coord C1 exon
chr29:42618965-42619036
Coord A exon
chr29:42618583-42618964
Coord C2 exon
chr29:42618151-42618582
Length
382 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGT
5' ss Score
9.81
3' ss Seq
TCTGTCTTTATTCTCGTTAGGTT
3' ss Score
9.41
Exon sequences
Seq C1 exon
GCCACTGCTGAAGCCAACAATTTAGCAGCTGCAGCCTCTGCCAAGGATGTTTATTACAACAACATGGAAGAG
Seq A exon
GTATGTTGGACGTAAGTCTTATTCTGAAATATCTAACCTGGGCAATATTTTTAACTTGAGAAGTCCAAGCTTGATCCTGCTTAGTATAGCTTATGATGATGAGGCAACATTCAGGTTATCCTGGTTATTGGGGCCTTTTAATTACGACCCTTTCTAAGCAAGACTTTCTTACAGCGGCACTGCTCTCACTGATCAGTATCACCCTGGTTAGTAAGTGTGCTTTTCAGAAGAATTGAACCCAGACTTTATTGATCTTAGTCATCATTTTAAAGTTCGTTTCTAGTATCTTAAAATTTTCTAAGCTTTTCAGCGTTTTCACTTGTTTTATTTGGCACTTGTTTCTGAAGGATTCTTTACTGCGTTCTGTCTTTATTCTCGTTAG
Seq C2 exon
GTTTGTGGGGGAGACAAACCTTATCTGTCTCCAGACATTCTAGAGGAGAAGCACTGCGAATTCAAACAGCTTGCTCTGGACCATTTTAAGAAGACGAAAAAGATGGGTGGGAAGGATTTTAGCCTTCGTTACCAGCAGGAGCTGGAGGAGGAGATCAAGGAACTCTACGAGAACTTCTGCAAGCACAACAGTAGCAAGAACGTCTTCAGCACCTTCCGAACCCCCGCAGTGCTCTTCACGGGCATCGTGGCTCTGTACATCGCCTCTGGCCTCACTGGCTTTATTGGTCTTGAGGTGGTGGCCCAGCTGTTCAACTGTATGGTTGGGCTGCTGTTAATAGCGCTTCTCACCTGGGGGTACATCAGGTACTCTGGTCAGTATCGTGAGCTGGGCGGTGCTATTGATTCTGGTGCAGCGTATGTATTAGAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003330:ENSBTAT00000046152:11
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:
PF028419=GBP_C=FE(18.1=100)
A:
NA
C2:
PF028419=GBP_C=PD(53.5=47.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTTAGCAGCTGCAGCCTCTG
R:
GCCACCACCTCAAGACCAATA
Band lengths:
355-737
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]