BtaINT0140408 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000888 | SPTA1
Description
Bos taurus spectrin, alpha, erythrocytic 1 (elliptocytosis 2) (SPTA1), mRNA. [Source:RefSeq mRNA;Acc:NM_001206588]
Coordinates
chr3:11201428-11202511:+
Coord C1 exon
chr3:11201428-11201615
Coord A exon
chr3:11201616-11202457
Coord C2 exon
chr3:11202458-11202511
Length
842 bp
Sequences
Splice sites
5' ss Seq
CAGGTATTG
5' ss Score
8.35
3' ss Seq
TTAATTTTTTTTTCTTTCAGAGA
3' ss Score
10.78
Exon sequences
Seq C1 exon
AGGAAGCAAAAGGAAATCCAGGCAAAGAAGCATCAACTGACCAAGATTGAGGACCTGGGAGAAAGCTTAGAAGAGGCTCTGGTCCTGGACCTTAAATATAGCACCATCGGGCTGGCTCAACAGTGGGACCAGCTCTACCAGCTTGGGATGCGAAGGCAACACAGTCTAGAAGAACAAATCCAAGCCAG
Seq A exon
GTATTGAGAACTTGTGGTTAAGGCTGGGCAAGGATGTGGGTGGTGTTAGGTATTAGAAACTTAGTCCCAAGACTAAACTTTGGGGGCACTGGATACAATGGCTGCTTCACTGATAGTGCACTTATTAACTCCAGAACCAGTTTTCTCTCTTTGCTGACCCAGAGAATGACTTAAAAAAAAAAAAATATGAGTCCACTATAAACTGCAAGACAGTACTATCATACTCCTGGGTCTACTTACCATCCATTTCTCAGAGTCTATGCATCATCTTATATGACCTCTTCAGAGAGCATTCCCTTTTGTAAAATTCCCATTAAAATGTCTGGAGTGAAAGAAATATTCAAAGTATAGAGCAGAAGATAATTTTTTTTCTAAATAAAATATTTTGGCAGCATTAGTTATTTAGACAAAGTTTTTCTGTAAAGATCCTGATAATATTGTAGAATTTGTGAGCCATTTAGCCTTTGTTTTAACTGCTGTGCTGTTACTCAGTTCTGCTGTTGTGAAAACAGATATTGATAATTAATAAATGAATAAGCATAAACATATTCCAGGGAAATTTTATTTATGGATGCTAAGATTTGAATTTCTCACAATTTTTAAAGTTTAAGGAAATATTCTTTTTTTTTTATTATTTTCAATCATGTAAAAACTATTCTCAGTTCATTGACTGTACAAAAGTGAGTGATCTCCTGGACCTGGCCCATGGACCATAGTTTGCCAGTCCCTGAACTAGGTGACTTGACTAGCCTAATAGTCACTAAAATTCCTCTATTACTATTATGGCATATCTATTTATATTTCTCTGTTTTATTTCATGGGTTAATTTTTTTTTCTTTCAG
Seq C2 exon
AGACATCACTGGTCTCAGTGAAGAGACACGACAAGAGTTTGAAACAACCTTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000888:ENSBTAT00000061417:48
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.048 A=NA C2=0.474
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(55.9=90.5),PF134991=EF-hand_7=PU(9.0=12.7)
A:
NA
C2:
PF134991=EF-hand_7=FE(20.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAAGCAAAAGGAAATCCAGGC
R:
AAGGTTGTTTCAAACTCTTGTCGTG
Band lengths:
238-1080
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]