BtaINT0078476 @ 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
chr22:21693855-21696233:-
Coord C1 exon
chr22:21696053-21696233
Coord A exon
chr22:21694109-21696052
Coord C2 exon
chr22:21693855-21694108
Length
1944 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAC
5' ss Score
8.14
3' ss Seq
ATCTCACGTTTGCGTTCTAGCCA
3' ss Score
7.21
Exon sequences
Seq C1 exon
CACTCCTTTTTCTGCCGGTTGACAGAAGACAAGAAGTCAGAGAAATTCTTCAAGGTTTTCTATGACCGAATGAAGGTGGCCCAGCAGGAAATCAAGGCAACAGTGACCGTGAACACCAGTGACTTGGGAAATAAAAAGAAAGATGACGAGGTGGACAGGGATGCCCCGTCACGGAAAAAAG
Seq A exon
GTAAACACTCCCCTGCTCGCAGCTCTGGGGTCAGCTGGATTGGGAACATGGGAGGAACCCTGGTTTTCCTTTCATTTTTACAGGACTTCTAGACTCCCAGATGGATTCTGACTGGGGCTTTCAGAAGAATAAAACCAGTCTGATTGTGATAAAACTCTTCCTATGTAACCTGGAAGAGTGGCTCAGTGGTAAAAGAATCTGCCTGCAATGCAGGAGACTCAGTTTTGATCCCTGTGTTGGGAAGATCCCTTGGAGGAGGGCATGGCAACCCACTCCAGTATTCTTGCCTAGGAAATCCCATGGACAGAAGAGCCTGACGGGCTACAGTCCATTGGGTTGCAAAGAGTTGGACACGACTTAGTGACTAAACAACAGCAACAACATGTAACCTGAACTGAATTCCTGCTGCTTGGGAAACTCCTAAGGTTTAATACACTAATACTTTCTTGGTCAAACCAGGGTTTTATTGGCAGGAAATCCACTGATAATCTTTTCTTGTAATTTTCATTTAATGTCCGAGAAAGTTGAGGAAGATACACACTTTAAAACAAAAGGCATTATCTAATCCTCCCTTATTTTCTAAAATATTTGAAAGTTCATGAAGCTTTTTATCCATTACCTTCCTTGAAGAGAAGTAATACTGGGGAGTGGGTAGACTCAAAAGTGCTAGAGTCAGATGGCCTCGAGCAGATCTGAGCCTTATTTTTTTAAGTTGAGGCCTGGGTTTCTCAGCCACAGCACGTGGGATATCTGGACAATCCATCGCTGTCAGGGCTGTCCTGTGCATTGCAGGCTGTGTACCAGCATATATGGCCTCAACCCAGTGGATGCCCCCGCGTGTATGCTAAGTTGCTTCAGTCGTGTCCAACTCTTTGTGACTCCATGGACTGTAGCTCGCCAGGCACCTCTGTCCATGAGATTCTCCAGGCAAGAATACTGGAGTGGGTTGCCATGCTCTTCTCCAGGGGATCTTTCTGACCCAGAGATCAAACCCACCTCTCTTATGTCTCCTGCTTTGGCAGGTGGGTTCTTTACCACTAGCACCAGCTGGGAAGCCTGTAGGTACCAGTAGCCTATCTCCAACTTGAAATCTCTCCAGATATTTCCTGTCATCCCCTGGGTGGAAATGGGGTCAAAATCACCCCTAGTTGGTAACCACTGGTGTAGAATGGGGATAAACAGAAGAAAAAGGAAGGCTTACATTTACTGAGTATTTCCTACGAACCAGGCACTGTCCAAAGTCCTTTACATGTGTTACTTCATTTAGAATTCAAGTCAACACTGTAAAATAAATTATTTTACATCCATTTTACAGACCAGGAAACTGAGGCATCAGAATGGTAATTAACTTGTTAAGAACATGAAAGTAGTAAGTATACCAGAGTCAGGATCTGAACCCAGGCAGTCCGGCAACAGAGTCTAATGCCCCTAACTCTAGTGCCTGGTTACCTTACAGGGTTAGTATGAGAAGTGAGCCAGGTAATTAATACACATCAAGTGCTTGATCAAATCACGGTGCCCTGGGGATCCGTAAAGGATTCCATCGATCGTCATACAGTAACAGTAATTACCATTTGCTTAGCTTATGTTGACCCTCTCGGGAACCCTCTCAGAGAAAGACTTCAGTAATGTTCTCCCCATTTTACAGATGAGGAAGCTGAGGCCCAGAGTCATAGGTGTGTGAAGCTGGCAGAACCTCTACCACTTTTCCTCTAAATGAGAGCAAGCTGAGGTGATGCCTTAGAGCCACAAGTGAGCTGGCAGAGCCCGACTCAGTTTTAATTCTAAGGGCTGAGAGAAGATGGTGCCATCTTGGAGCGTTTTGCCAACCTTGAGGGGCTCTCTAGTGATGGCAGAACTTAGGTCTCTTAACATCGTCTCTGGCGTGGTGAATAGCGTTCCAGAGGATTCGGCAGCACTGACCATCTCACGTTTGCGTTCTAG
Seq C2 exon
CCAAAGAGCCTGCGACGCAGATTACGGAAGAGGTGCGGGATCAGCTCTTGGAGGCCTCTGCTGCCACCCGCAAAGCCTTCACCACCTTCAGAAGGGAAGCTGACCCCGACGACCACTACCAGTCCGGGGAGGGCGCCCAGGCCGCGGCGGACAAGAGCAAGGACGACCTGGAGATGAGCGCGGTCATCACCATCATGCAGCCCATCCTCCGCTTCCTGCAGCTGCTGTGCGAAAACCACAACCGGGACCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020455:ENSBTAT00000054653:38
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.393 A=NA C2=0.353
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF084546=RIH_assoc=PU(24.2=34.1)
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:
CCCAGCAGGAAATCAAGGCAA
R:
GTTGTGGTTTTCGCACAGCAG
Band lengths:
344-2288
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]