BtaINT0078481 @ 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
chr22:21677948-21679530:-
Coord C1 exon
chr22:21679408-21679530
Coord A exon
chr22:21678053-21679407
Coord C2 exon
chr22:21677948-21678052
Length
1355 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCGA
5' ss Score
7.75
3' ss Seq
TGTCTGCACTTGTGTTCTAGTTG
3' ss Score
9.06
Exon sequences
Seq C1 exon
GTGGAAGTGATCAAGAAAGCCTACATGCAAGGTGAAGTGGAGTTCGAGGATGGTGAGAATGGTGAGGACGGAGCTGCCTCCCCCAGAAACGTGGGACACAACATCTACATCCTAGCTCATCAG
Seq A exon
GTGCGACCCCTCCCTAGGCCCCTCTGCCCGACAGTCAACGCCAGCATTCCATGCACGCGCCCTTAAACTTGCTTTTCCTGTAAGGATTCAGCCTGAGGTTGTTTGGGCGCGTGGTAACATGGCTCACGGGTACCGCCAGCCACCTGACCCCGAGTGTGAGGTCCAGGCTGCTTCCAGTGTTCCACTCCCGCAGGGTCATGTCCTTGGAAACCCCCACATTTCTTAAAAGCGTTCCCACTGAGCCATGACACTTGGATAGTTTATGACTGTGTCTCCAGACACTTGAAAGGAGTCCTAGTCTTTTCATAAATATTGATGAGTCTGTCTTAACCGTCTCAAGAAAGAAACCTCAGCTGCCTGGCCTATCGCACTTGGAAATCTTTGGGAACTTGTCACTCTGCCTTGTCTTTGTTTGCCTTTCGGGGGATGGAGTAATACTTCCTACCCTGGCACCAGAATGCCCTGTTTCGTAACTCGCTTCCCAAGTGGCTGGGCTTCTGAAGACACTTCCTCTTTCTGGAGGTTGACGTGCTTGGAGCAGGCTGAGGTGTGTGGGCAGCTGGGAACTCGGCTGCTTCTGGTCCCCTCCACCTCTCTTAGGTGGAGGCATTTGATAGAAAACAGTGATGGGATTGGGCTGCAGGTTGAGAAGTCTGTGCTCCTTGTCTCCTCCATTCCTGGCATTTAATTTAGCCCCTGGGAGTTTGGGAAGGTCACGTGCACACTGCTATATTTAAAATGGATAACCAACAAGTACCTACTGTATAGCACTTGGAAGTCTGCTCTGTGTTATGTGGCAGCCTGGATGGGTGGGGGATTTAGGGGAGATTGGATACATGTATATATATATGGCTGAGTCCCTTCACCATTTACCTGAAACTGTCACAGTATTGTTAACTGGCTATACCCCAATACGAAATAAAAAGTTTAAAGTTTAAAAAAAAAAAAAAGTATATGCCCAAATCAGCTTACTCAATCTTAATGAGCAAGTACATTCATTATCAAATGAAATTATTTAAGCTTTAAAAAAAATGATAATGTAGCCCCTGTGAGGTTTCAGGGCATTCCTTAAGGAGGCTCTGTGAGGTTGGATAGAAAACCCCACCTTCCTCCTGCCTGGCCAAGGAAACCAGGGCAAAGTGGGCCCTTGAGTGGACATGCGCTCTCCATGCCACTCTGCCAGGCTCCCAAAATAGCTGCCGTGCAGAGCAGGCCTCAGTGGGGTGCAGGGGGGCCCCCCTTCACCCTCCAGCTTGCCGCTTGTTCCCATGCGTCTTTTCTACCCAGAGCTAGGAGGCAGCTGTGTGTTTCTGTTGCAAACAGAACTGACTGCCCTGTCTGCACTTGTGTTCTAG
Seq C2 exon
TTGGCTCGACATAACAAAGAGCTTCAGACCATGCTGAAACCCGGCGGCCAGGTGGATGGAGACGAAGCTCTGGAGTTTTATGCCAAGCACACGGCCCAGATAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020455:ENSBTAT00000054653:44
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.317 A=NA C2=0.200
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
GTGGAAGTGATCAAGAAAGCCT
R:
CTATCTGGGCCGTGTGCTTG
Band lengths:
226-1581
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]