BtaINT0078447 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020455 | ITPR1
Description
Bos taurus inositol 1,4,5-trisphosphate receptor, type 1 (ITPR1), mRNA. [Source:RefSeq mRNA;Acc:NM_174841]
Coordinates
chr22:21800963-21801936:-
Coord C1 exon
chr22:21801776-21801936
Coord A exon
chr22:21801105-21801775
Coord C2 exon
chr22:21800963-21801104
Length
671 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
ATTGCTTCTTTCCTCCTAAGATC
3' ss Score
7.88
Exon sequences
Seq C1 exon
ATTGGCACTTCTCCCGTGAAGGAGGACAAGGAAGCCTTTGCCATAGTGCCAGTCTCTCCTGCTGAGGTTCGGGATCTGGACTTTGCCAATGACGCCAGCAAGGTGCTGGGCTCCATAGCGGGCAAGTTGGAGAAGGGCACCATCACCCAGAATGAAAGAAG
Seq A exon
GTGAGGGCTCCCTGCAAGAACTGCACATGCTCGTTCTCACCCACCGTGGATTTTAAAATTCCTGGCAGAGAGAGAAGTGTTCTGAAGAGCTCTGTGGAAGAGCTCCAGGCCTTAGCACTTACCAGTGGCTTCAACTTGTGGTTTTCAATAGTTTCTCTCACTATTCTGAAGGTCTCTAAACAGTAAAGATCTCCTTCCTTCTCTGTTTTCCTGCCTCTGGCTTGGTCTTTGGAACTACCTTATTAAATATCAGTGGTGGAGGTTGTGTGTTGGTTGCTCAGTCGTGTCCAACTCTTTGCAACCCCTTGGACTGTAGGCTGCCAGGCTTCTCTGTCCGTGGGATTCTCCAGGCAAAAGTACTGGAGTGGGTTGCCATTTGCTTCTGCAGGGGATCTTTCCTACCCAGAGATTGAACCGGGGTCTCCTGCATTATCTGAGATAAAATGTAATGTCTACTGTTTTGTGAAAATGATAATCTTTTTTGGACAGTGAAATGTTGTCTCTGTTGCACTCTTACTGGTAATTGGCCTTAATTGACAATTTCAAGGAAACTGGGAAGAATGGGTTTGCGTCTGTGTGACTGGTTCCTTAAGCCTGAAAGCTTTCATGGTGGTTTTGATTCTGTTAAATATCAAACACTTCCCATGTCTAATTGCTTCTTTCCTCCTAAG
Seq C2 exon
ATCTGTAACCAAGCTGCTGGAAGACTTGGTTTACTTTGTCACTGGCGGAACCAATTCTGGTCAAGATGTTCTTGAAGTGGTCTTCTCCAAGCCCAACAGAGAGCGTCAGAAGCTCATGAGAGAACAGAATATTCTCAAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020455:ENSBTAT00000054653:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.056 A=NA C2=0.021
Domain overlap (PFAM):
C1:
PF0281514=MIR=PD(7.4=27.8)
A:
NA
C2:
PF0136516=RYDR_ITPR=PU(22.3=95.8)
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:
ATTGGCACTTCTCCCGTGAAG
R:
AGAATATTCTGTTCTCTCATGAGCT
Band lengths:
296-967
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]