BtaINT0140449 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015327 | SPTAN1
Description
spectrin, alpha, non-erythrocytic 1 [Source:HGNC Symbol;Acc:HGNC:11273]
Coordinates
chr11:99166326-99167650:+
Coord C1 exon
chr11:99166326-99166534
Coord A exon
chr11:99166535-99167529
Coord C2 exon
chr11:99167530-99167650
Length
995 bp
Sequences
Splice sites
5' ss Seq
CAAGTACGT
5' ss Score
8.4
3' ss Seq
TGCCTACCTGTGTTGTCCAGGGA
3' ss Score
6.22
Exon sequences
Seq C1 exon
GACCGCCTGAAGGACCTCAACAGCCAGGCGGACAGCCTGATGACCAGCAGCGCCTTCGACACCTCCCAGGTGAAGGACAAGCGGGACGCCATCAACGGCCGTTTCCAGAAGATCAAGAGCATGGCCGCCTCGAGGCGAGCTAGGCTGAATGAGTCCCACCGCCTGCACCAGTTTTTCCGGGACATGGATGATGAGGAGTCCTGGATCAA
Seq A exon
GTACGTGCTCCCGCTCGGCGTCCCCAGAGCCTTAGGAACCCTGGGGTTCATTCTCTCCTGGACCCTGGTGGCGAGGCGGACATGGGTCAGATTCTGGGCCCAGCTCGGCCCAGCCTTGCCACACGCCTGTGGTGGGACGTCTCTGCTTCCCCTCCTGGTGTCTGGTGACTGGTAACGTTAGTGAGGTCCACCTGGGGAAGACTGCTGCTTGGGGTAAGGGAAATTTGCTGTGGTTTGTTTTTATCATCCCGCCCCCAGAATTCTAGTGTACTTTTTTCAGATGAAAGAGCATGTAAACAGACCATTTTTAAGGACAGATTGTGATTGTTGATTGTCAGTCACTTTGTCATGTCCGACTCTTTGTGACGCCATGGACTGCAGCACACCAGGCATCCCTGTCCTTCACCAGCTTCTGGAGTTTGCTCAAACTCATGTCCATTGAGTCGGTGATGGCTTCCAACCATCTCATTCTCTGCTACCCGATTCTCTTTTGCCAAGATCCTCTCAATTCCTCACTTCCTTAAAAAGCTATTTATGGGACTTCCCTGGTAGTCCAGCAGTTAAGACTTGGCGTTTCCACTTCAGAGGGTACAGTTTTTATCCATGGTCCAGGATCGAAGATCCCATGTGCCACACAATGAGGCCAAAATTAAAAAAAAAAGAGTTGTTTAAAGAAAGCTGTTTCTAGTAGCATCATCACATGGCGCCACCTGGGGCAGGCGTATGTTTGATAAGGTGGGATTGATGGGGTGTCCGCAGTGGCTCCTCCTGTTCTCCTGCAGCCCTTGCAGAGCCGCGCACAGTGGGTGCTCCTTGAGGCGTGCGTGGACTCTGCATTGGGAAGTGGAGGCTTTGTTCCCTAGAAGAGTGGCGCAGACGCTCCTGAAGGGGTGGGTAGGCGCAGGAAGGAGACCGTGGGGTCTGTGAACGTCACAGCTCTGTGACCATGCAGCTCCAGTTGACACGGAGGCTGACTGCCTACCTGTGTTGTCCAG
Seq C2 exon
GGAAAAGAAGCTGCTGGTGAGCTCAGAGGACTACGGCCGTGACCTGACGGGCGTCCAGAACCTGAGGAAGAAGCACAAACGGCTGGAAGCAGAGCTGGCTGCCCACGAGCCGGCCATTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015327:ENSBTAT00000020395:39
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.100 A=NA C2=0.073
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(47.6=71.4),PF0043516=Spectrin=PU(16.2=24.3)
A:
NA
C2:
PF0043516=Spectrin=FE(38.1=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:
GCCTGAAGGACCTCAACAGC
R:
CTGAATGGCCGGCTCGTG
Band lengths:
326-1321
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development