BtaINT0013302 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018255 | ACTN1
Description
Bos taurus actinin, alpha 1 (ACTN1), mRNA. [Source:RefSeq mRNA;Acc:NM_001035351]
Coordinates
chr10:81028641-81029719:-
Coord C1 exon
chr10:81029540-81029719
Coord A exon
chr10:81028788-81029539
Coord C2 exon
chr10:81028641-81028787
Length
752 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGC
5' ss Score
6.32
3' ss Seq
CGGGCCTTGCCTGCCTGCAGCAC
3' ss Score
7.9
Exon sequences
Seq C1 exon
GAGATTGGAAGGATCTCCATTGAGATGCACGGGACCCTGGAGGACCAGCTCAACCACCTGCGGCAATATGAGAAGAGCATCGTCAACTACAAGCCCAAGATCGACCAGCTGGAGGGCGACCACCAGCTCATCCAGGAGGCGCTCATCTTCGACAACAAGCACACCAACTACACCATGGAG
Seq A exon
GTGGGCACCACCAGCCTTGCTCCCCTGGAGAGGGAGCCCCGGATCCCCCTTCTGCTTCCCTCGGCTGGGGAAGTGGTGGTGGGGGGGGTCACCCATCATTCCAAGCAGACTGGTTGCATAGTAGGATAAACCCTAGGTTTTAAGTGAGAGAATACTCAACTTCTCCTCCCTCCTGGAGCTCTGAGTCTTCGGTCCTCAGTGACTTTTGAATTTCCCCAGGAGCTTGCTGAGAATGCAGATTTCCAGGCACCGTCCCAGAATTTGATTCACTAGGTCTGGGATGGGACTTGGGTATCTAAATTTTTAACAAGTACCCAGTGATTCTGAGACTGGTGGTCACCAGACACTGGTTTGGCCTCTGCTTTTTAAATGACCTACTTGTTTTGACTATGAAGGCATGGGTGTGAGGTTATAGAGTTGGATGTTCAGGGAATTACCTACTTTTTTGTCCTTTGATCTTCCCCACTGTCAACTTTGCCCTTTTTCCTGACCTGACCGCACTGGTCATCCTGGTTTCTGCTGTTCCGGGCAGAAACCATCACCCTTCTGTGCTTCCCCCTTCATCATCTGGGTCCTCTGTCCTGGTTTGCTGTCCTTGTCCTGGTTGCCCAGCGCCTGTTGACTCTGTTAATCCGGGCAGAAGGCCTGGTTTGATTGCATTGGCCATTTTGATGATCAGGGGAGGGAGTAGGGAGGGGTGACCTGGGCCCAGGCCTGGGACCCCTTTGCTGACGGGCCTTGCCTGCCTGCAG
Seq C2 exon
CACATCCGTGTGGGCTGGGAGCAGCTCCTAACCACCATCGCCAGGACCATCAATGAGGTGGAGAACCAGATCCTGACCAGGGATGCCAAGGGCATCAGCCAGGAGCAGATGAATGAGTTCCGGGCCTCCTTCAACCACTTTGACCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018255:ENSBTAT00000024301:17
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=FE(56.7=100)
A:
NA
C2:
PF0043516=Spectrin=PD(20.2=42.9),PF134991=EF-hand_7=PU(32.1=55.1)
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:
GAGATTGGAAGGATCTCCATTGA
R:
CAAAGTGGTTGAAGGAGGCCC
Band lengths:
322-1074
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development