BtaINT0013306 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018255 | ACTN1
Description
Bos taurus actinin, alpha 1 (ACTN1), mRNA. [Source:RefSeq mRNA;Acc:NM_001035351]
Coordinates
chr10:81023526-81025891:-
Coord C1 exon
chr10:81025733-81025891
Coord A exon
chr10:81024265-81025732
Coord C2 exon
chr10:81023526-81024264
Length
1468 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGT
5' ss Score
8.23
3' ss Seq
TGAGCGCATTGTTTTCGCAGAAC
3' ss Score
6.83
Exon sequences
Seq C1 exon
GGAGAGGCAGAGTTTGCCCGCATCATGAGCATCGTGGACCCCAACCGCCTGGGGGTGGTGACGTTCCAGGCCTTCATCGACTTTATGTCTCGTGAGACAGCTGATACAGATACAGCAGACCAAGTCATGGCTTCCTTCAAGATCCTGGCCGGGGATAAG
Seq A exon
GTGGGTGTGCTGTGGCGTGGGTGCCGTGCGGAGGTGGGCTGAATTGGAGGAGCGGTCATGAGCAGCTCCGCTGTTCCTTCTCCCACCCCGAGCCTCACTGCTGTCCACCTCTACCCGTTTCTGTAGCATTTGGGATTCAGCTAAGAGGTTAGGACACTGTATTAGCTTCAGGGAGTCCCTTGCCACGGACATTGCATGTCATACTTATGATGAGATACTGGTGATGAAATGACTGGCAGTGGAGGGCAGTCCAGTCAGATGGAGTATGTGAGTGGGTGATGAAAGGTCAGTCTGGGAACTTAAGACTTCAGCCCTGCATCATTCTGGGCATGAGCCATGGCATGTGGATGGGAAGCAGGAAAGAAGCATGTTTCTCATTTGTCTACCCTAAGCAGCAGTCAGCTTCAGTTCTCCAAATCTCCCAGGTTCCCTGCACTGCCAAGCCTGACAGTGGGAAAGTAGGCGCATCCCGGGGGATTTGGAGGCAGAGAGATCTAGAGGTCAGATTCCCTTCCTGTAAAATTCATAGGATAATCCTTAGGCTGTCCTTCCTTAGCCAGTAGGGAGAATAGTTTCTGAAATGTCTCAGTCTACATTGAAGTAAAGACTGAACCAACAAAGAGGTTCCTAAAGCTCTTATTTACATTCAAAGACACCTTGTTAGAGTCATAGCACTTTGGAGCTGGAAGGACCCTCAGAAACCACCTCCTTCAAGTGACTCATTTGGTCGAGGAAGTCTCCGGGGCCCAGAAAGGGACCTGATCTCTTGACTCTTGAAGTGACTTGAGGGCCAACCCCTGTCTCCTTCAGACTGGCTCCTTAGGGGACTCTGGCAGAAGTAGGGCAAGTCCCTGAACACGTGTGAAGCCGCTAGCTCCCCAAAGATGCAGGTTCCAAGTAGACTTTGATGGGCAAGCCCAAGACAGGGAGGAAGCAGACATCCCAGACTGGGAACCAGATGGGCTGGGGGAAGGTTAAGAGTCTGTCAGTGGCAGTGATGCCCCAGACTGGAGGCTCCTGTGATTTATGAGAATTGTGTGACCTCCTCAGAGCCCAGCTGAGTTGGGCGTGGGAGTCCTACTCTGTTTCACCAAATATGGTATTGCTAATACCCGCCTGTGGTTGGTGCACACTAGAGAGATACACGAAAAGATTACAGGTGCAATTAGCTCTTGGAATTACTTGGAAACAGGCTAAAGTAGTTACTGAAGTGAAAAACAAGGGGATTGAAATATATGTTATTTAAATATATATACACATATATAGATATGTACATATATAGATAACATTTATACATATGTGTCTATATCATATAACTTATCGTATAATTCATTTATTTACATATATGCCTGATACAGGTATATATAATGTACCTGTTGGAATGGGGGCTGGACAGGGTACCTTACCTCCTGAGTGAGGTTCCCGACCTCCGGGCTTTGCGGCCGCCCTGAGCGCATTGTTTTCGCAG
Seq C2 exon
AACTACATCACGGTGGACGAGCTGCGCAGAGAGCTGCCGCCTGACCAGGCTGAGTACTGCATCGCGCGAATGGCCCCCTACACCGGCCCCGACGCCGTGCCCGGTGCTCTGGACTACATGTCCTTCTCCACGGCGCTGTACGGCGAGAGTGACCTCTAACCCGCCCCGCCTGGTCCACACCCTCGCCCCTCGCCCCCCGCCCCATCCGCTGTGCGAGCCCCACCCTGCGCCTCCGCTGTACCGCCTCTCCCGCCCGGGTTTGGTTTCACGCTCTGCCTCCAGTGGGCGAGCTGGGACCCGTGTGGCATCCAGCCTCCCTGCCCGTGAAGTGACAGTTTACAAAATTATTTTCTGCAAAAAAGAAAAAAAAGTTACGTTAAAAAAAAAAGTAAAAAATACCAAAAAAACCACATATTTTATTATACAAAAAGTATTTTTTTCTCCACCAGACTTAAATGGAAAAGAGGAAGAATTAACTATTTGCACCGAAATGTTTTGTTTTGTTGTGACATAGGAAAATAACCAAGCACAATGTTATATCCATCCTTTTTATCGATTTTTTTTTTCCTTTCTATCTGTACCATCTGCTGTATTCATTTCTCCAATCTCTTGTCCACCTTGATGTGGGAGTGGGAGGTGAGGGCAGGGGAAAATCTTGTCAAAAGGCACATTGGTGCATGTGTGTTTGCTAGCTCACTTGTCCATGAAAATATTTTATGATATTAAAGAAAATCTTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018255:ENSBTAT00000024301:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.019 A=NA C2=0.019
Domain overlap (PFAM):
C1:
PF134991=EF-hand_7=PD(33.3=52.8),PF087265=EFhand_Ca_insen=PU(26.9=34.0)
A:
NA
C2:
PF087265=EFhand_Ca_insen=PD(70.1=88.7)
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:
AGATCCTGGCCGGGGATAAG
R:
AAACTGTCACTTCACGGGCAG
Band lengths:
358-1826
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development