BtaINT0013301 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018255 | ACTN1
Description
Bos taurus actinin, alpha 1 (ACTN1), mRNA. [Source:RefSeq mRNA;Acc:NM_001035351]
Coordinates
chr10:81029540-81030847:-
Coord C1 exon
chr10:81030713-81030847
Coord A exon
chr10:81029720-81030712
Coord C2 exon
chr10:81029540-81029719
Length
993 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGT
5' ss Score
7.07
3' ss Seq
CCTCCTTTCTGGGTGAGCAGGAG
3' ss Score
3.91
Exon sequences
Seq C1 exon
GTGCGGCAGCTGGTGCCACGGAGGGACCAGGCCCTGACGGAGGAGCACGCCCGCCAGCAGCACAACGAAAGGCTACGCAAGCAGTTTGGGGCTCAGGCCAATGTCATCGGGCCCTGGATCCAGACCAAGATGGAG
Seq A exon
GTGGGTCCCAGCACCGAAGGCCCGGCAGGGGCTTCCACCCTTCCTTGTACCATCCCAGACAGTCAGGCTTTCCCTGTCTCCTCCTGGACGGGACCTGTGGCCACTGTGGGTCCTGAACCCACAGCTGGCCTGCTGCCCCGTGGAGGGTGTGGGACCTGTGCCCACACAGGGACACCACATGAGACAGTCCCACGGAAGGATCAGTGCCTAGGTGACTGATTGGGCTTGCCCTGTGGCATATGTGGTTGAGCTGGTCTCCCTTCCTCCTGAGCCATGAGCTTGGCCAGGAGGAGGTGATCTCCCCAGAGAGAGAACTGTGCTTTGGGCAAGCGTGAGATTCTTTGCTGTATTGTTGGGCCAGGTACCAGGGTGATGTAGGTAAGGAAGGAACACTGCTTGGGTTAGAGCGTGGTGTCCCTCTGAATTCCTTGAGGGCAGAGACCATGTCAAGTTCCTCTGTGCTTTTCTGGACCCCATCTCTACCTGCTTAGCACATTATGCATGGTAGTGGGTGCTCCAGAAATGCTTGCCAAGTTGAACTGAATTCCCAATGAGAGACAGAGATGGGGATTAGGCCTGGACCATGGAGACAGGTGGGATTGAGGTGGGCAAGGCAGGCCTCCGAGGAACCAGAACAGCAGGATCGAGTTCATTGAGAAGGTGAGCCAGATGCCCTGAGGCTGTGAGGAACCCAGCTCAGTGGGAAAACTTCCCTGAGATGGGTGGTAGTCGGGAATGGGCCTGGGATGGGAGTTTGAATGGCAGGTAGAGGAGTGAATCTTTAAGTTAGCAACTGACCTTGCATCCCCTTCCTGAGGCTGAGGGGTAGCCGGGAGATGGGAGGTATTCATCTGGTGATAACAGTCAGTGCCGGTCAGATTCCTTTATGATGCTATTTCCATGCCAAGAATCATCAGAGGGGTTGGCCCCAGTCTCCACCCTGGGGGCCCAGAGTGCATAGGTCTCACAAGAGCCTCCTTTCTGGGTGAGCAG
Seq C2 exon
GAGATTGGAAGGATCTCCATTGAGATGCACGGGACCCTGGAGGACCAGCTCAACCACCTGCGGCAATATGAGAAGAGCATCGTCAACTACAAGCCCAAGATCGACCAGCTGGAGGGCGACCACCAGCTCATCCAGGAGGCGCTCATCTTCGACAACAAGCACACCAACTACACCATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018255:ENSBTAT00000024301:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (disopred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(11.6=28.9),PF0043516=Spectrin=PU(20.2=46.7)
A:
NA
C2:
PF0043516=Spectrin=FE(56.7=100)
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:
GAGGGACCAGGCCCTGAC
R:
TCCATGGTGTAGTTGGTGTGC
Band lengths:
294-1287
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development