BtaINT0140457 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015327 | SPTAN1
Description
spectrin, alpha, non-erythrocytic 1 [Source:HGNC Symbol;Acc:HGNC:11273]
Coordinates
chr11:99173160-99174036:+
Coord C1 exon
chr11:99173160-99173369
Coord A exon
chr11:99173370-99173739
Coord C2 exon
chr11:99173740-99174036
Length
370 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGC
5' ss Score
10.22
3' ss Seq
TCGGTCACCTCTGCCTTCAGGTG
3' ss Score
9.13
Exon sequences
Seq C1 exon
GAAACCTTCGATGCTGGCCTGCAGGCCTTCCAGCAGGAGGGCATCGCCAACATCACTGCCCTCAAAGATCAGCTGCTGGCCGCCAAGCACGTTCAGTCCAAGGCCATCGAGGCCCGCCATGCTGCCCTCATGAAGAGGTGGAGCCAGCTCCTGGCCAACTCGGCCACCCGGAAGAAGAAGCTGCTGGAGGCACAGAGTCACTTCCGCAAG
Seq A exon
GTAAGCGCGGCCCTGGCCAGCTATGCACACATGGACAGCAAATCCAGCTCTGCTCCGGGGCATGGGATCAACATAAACCAGCCAGGTGGGGCCCTTGTCTTCACGAGGTTGCTGCTCTGAAAGCGCCTGGGACGCTGAGCTTGCACATCCCAGAAAGGGGAACGTGGGAGAAAGGTGGAGGCCCCTTAGCAGTGGGAGAAGGGAGACAGAGCGCCGAGCGAGCGAGCGAGCGAGTGAGCCCGATGCCCTGGGAACGAACCCTGGCTTTCTGGGCCCCACACTGCCGCCTGCCCATTCGCCCACCGAGGATGGTCCCTACGGCCCTGCACCATACCTGCAGCTGTGCTCACTCGGTCACCTCTGCCTTCAG
Seq C2 exon
GTGGAGGATCTCTTCCTGACCTTTGCTAAAAAGGCTTCAGCCTTCAACAGCTGGTTTGAAAACGCAGAGGAGGACTTAACCGACCCAGTGCGCTGCAACTCTCTGGAAGAGATCAAGGCCTTGAGAGAGGCCCACGACGCCTTCCGCTCCTCGTTGAGCTCGGCCCAGGCCGACTTCAACCAGCTGGCAGAGCTGGACCGCCAGATCAAGAGCTTCCGCGTGGCCTCCAACCCCTACACCTGGTTCACCATGGAGGCCCTGGAGGAGACCTGGAGAAACCTACAGAAGATCATCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015327:ENSBTAT00000020395:46
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:
PF0043516=Spectrin=PD(58.5=88.6)
A:
NA
C2:
PF0043516=Spectrin=PU(91.4=97.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCTCAAAGATCAGCTGCTGG
R:
CTCTGCCAGCTGGTTGAAGTC
Band lengths:
344-714
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development