BtaINT0140409 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000888 | SPTA1
Description
Bos taurus spectrin, alpha, erythrocytic 1 (elliptocytosis 2) (SPTA1), mRNA. [Source:RefSeq mRNA;Acc:NM_001206588]
Coordinates
chr3:11202458-11202788:+
Coord C1 exon
chr3:11202458-11202511
Coord A exon
chr3:11202512-11202641
Coord C2 exon
chr3:11202642-11202788
Length
130 bp
Sequences
Splice sites
5' ss Seq
TAGGTGCGT
5' ss Score
6.6
3' ss Seq
AAATATTTTTTGTTCTTTAGGCA
3' ss Score
7.81
Exon sequences
Seq C1 exon
AGACATCACTGGTCTCAGTGAAGAGACACGACAAGAGTTTGAAACAACCTTTAG
Seq A exon
GTGCGTATAGCTTCATAGCTGATTGTTTTGCATGCAATTCAGAATGAAGTTCCAGATAACTATTTTTTATCCCTCTGTGTGGTTTGATCTGATTCTTGGTGAACCTGATTAAATATTTTTTGTTCTTTAG
Seq C2 exon
GCACTTTGATGAGAATTTGACAGGTCGCTTGAGTCACAAAGATTTCCGGTCCTGCCTGAGAGGGCTCAATTACTACTTGCCCATGGTGGAGGAGGGTGAACCCGAGCCCAAGTTTGAGAAATTCCTGGATGCTGTTGATCCAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000888:ENSBTAT00000061417:49
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.474 A=NA C2=0.100
Domain overlap (PFAM):
C1:
PF134991=EF-hand_7=FE(20.2=100)
A:
NA
C2:
PF134991=EF-hand_7=FE(55.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTCAGTGAAGAGACACGACA
R:
TCTGGATCAACAGCATCCAGGA
Band lengths:
186-316
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]