RnoINT0076673 @ rn6
Intron Retention
Gene
ENSRNOG00000007104 | Itpr1
Description
inositol 1,4,5-trisphosphate receptor, type 1 [Source:RGD Symbol;Acc:2933]
Coordinates
chr4:140548152-140549519:+
Coord C1 exon
chr4:140548152-140548244
Coord A exon
chr4:140548245-140549379
Coord C2 exon
chr4:140549380-140549519
Length
1135 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGA
5' ss Score
9.45
3' ss Seq
ATTGCTCACCCTGCTCACAGAGC
3' ss Score
8.62
Exon sequences
Seq C1 exon
AAACTGGTGAGAGTTTGGCCAACGATTTCCTGTACTCTGATGTGTGCCGGGTAGAGACGGGGGAGAACTGCACCTCTCCGGCACCCAAAGAAG
Seq A exon
GTAGGACCCCATGGCTACCAGCCCAAGGTGACTATCTGACACCTTCAGTGGTGTACATGAGGCAGGTGGTGTTGGAAGCATATTAAAGCGGAAATACTGCTTAGGAGTGAGGCCAGCAGGGAAAGGGAAAAGTTAGATGGAGTTTAGGGGAAGACCCCTAACAGAAAAGGAAGCCACGTGTGATGAAACATGCTGCTGACTTGAGGCGGCCAATGTTTGAGTGCCCACTGTGGACAGAGAGACAGTATGGGACGTGGGTGGGGTGAGGTAAATAAGAGATCACATCACATAACCAAATGCTGCTTCAGTAAGGATACAATTTTGAAGATAGGCAACCAGCAAAGTAGTGTGGTAAAGTGCCACAACTAAAACAGGACTCTTAGAAAAGGAGGGGAGGAAAGCATTCTAAAGGCTTAGTGGCAAAAGTCCTTCAGAGAGGTAATGGTCATGTGCAAGGAGAGCGGCAAGAGGTGACTCTGGAAAAGGGCAGGTCTCCATGGATCTGTGTCAGGCTAAGCGGGTGAAAGAGCCTGGAAGCTACAGCACTGGAATGATGCTGGATAGCACCTCAGTGGGCAAGCACTTGCCCATGCCTGTCTGAGTCCCCACCAGGAGTACAAAGTAAATAGATGCAAACCAAAGGAAGAGAGAGTGAGATCTGGGTTTTAGCAACCAAATGAGAAAGTAGCAAGATAGGCTGCAAAGTGGGGTAAACAGCCTCTAACGGGAAGCCAAAGACCTGTGTAAGATCCAACCAGGCTTCTGTCCTCTGAGCATGCCCAGTTGGGTACCTGGCAGAAAGCTCATCTGAGAGGCAAGATGCCTTGTTCTCAGCCTAGGCCAAAGACTATTCTGTTTGCAGGTAGGACTGTAGTGTAAACAGTTGGTCAGACGCTAGGGGATATTTGAAGCTCCGTAGAGGAAGGACAGTACTGGCATAGCTTGAGAAGTTTGCAGGGTTTAGAAGTGGGAACAGCCCCGTTCACTCCTGACAGCGTGTATCTGACTCTCAATTCCTCAGTTTTGTTTCATGGGCTGCCAGCTGGAGAGATGGCATTTGGGAAGCATCATTGTGGAATCAGTGTCTCTTTCCCCGCTCCCGTCTAAACCGTGTTATTGCTCACCCTGCTCACAG
Seq C2 exon
AGCTGCTCCCTGTGGAAGAAACGGAACAGGATAAGGAGCACACGTGTGAGACACTGCTCATGTGCATCGTCACCGTTCTGAGTCACGGGCTGCGGAGTGGGGGCGGAGTAGGAGATGTGCTCAGGAAGCCATCCAAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007104:ENSRNOT00000040255:58
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.125 A=NA C2=0.170
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(12.1=100)
A:
NA
C2:
PF0052026=Ion_trans=FE(17.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTGGTGAGAGTTTGGCCAAC
R:
CTCTTTGGATGGCTTCCTGAG
Band lengths:
231-1366
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]