GgaINT0021994 @ galGal4
Intron Retention
Gene
ENSGALG00000008294 | ITPR1
Description
inositol 1,4,5-triphosphate receptor, type 1 [Source:RefSeq peptide;Acc:NP_001167530]
Coordinates
chr12:18516524-18518394:+
Coord C1 exon
chr12:18516524-18516625
Coord A exon
chr12:18516626-18518254
Coord C2 exon
chr12:18518255-18518394
Length
1629 bp
Sequences
Splice sites
5' ss Seq
ATCGTGAGT
5' ss Score
8.88
3' ss Seq
TTTGCTTGCTGTGTTAACAGAAC
3' ss Score
7.26
Exon sequences
Seq C1 exon
ATCGCACAGAACCAGGTGAAACCATGACTGGGGAGTTTCTCTATTCAGATGTGTGCAAAGCAGGCAGCAGTGAGAACTGTTCTTCAATCATTCCTTCAGATC
Seq A exon
GTGAGTATCTGCTTTTCGAATTCTTAACTCCCATCCTGAGTTTTCACCCTTTTTCATGTTAAACACCTTAAGTAGATATGATATATATTTTTCAATATTAAAAAAAAAAAAACTAACTAATTTGGGTAGGAAAGCTATTGTGAGACTAATGTGAAATAAAACGAACTTAATGCAACAGCTTAAGTGACATTTGTTGCATGAAGCGTTTAAACTAGAGAAACTTGAAACTGAATCATGCTTTGATAAAACATTGATTATATTCTTTAATTTTGTACCTTATCAATTTGAAAAGGAAGTGATGCAGTTTAGGTCCTCGCAAAGTTTATTGTATTAGGCTATTAAATGTGATCTCAGAGGATAATACTCTGAAATATGGAACAGGACATCGTTTATTGTCAGCATTATTCTATCTAGTTAACTAAGGAAACTGTTTTTAATATCATGTCAGGAAGTACTCAATGGATTAAGCACACAAGGTAGTTTTGGGGCTCAGGAAAGTGCATGTGAGATATTACTTGTAGCATAATCACCAGCCTCAGATTGGATGCTGAAAATTCTCAGTTTTATTTTCTAGAAAATGTAATTTACTACTTAGAGATTTATGATGCTGGCTGAGAAAGCCAGACAGAACAATGTTATTTATCTTAGAAGTGGAGCTCTTATACGGCCAAGTGTTTCAAAGGTCAGTAATGGCCACAAGCCCATGCTCTCAAGGGGAGATGGCTCTGTTTTGCTCAAGTGTCCTCTTTAATAAAGTAAGATTCAACATAGATACAAGAACAGCTTCTTTATTCAGCTTTAGGAGGAGAGCTCTTTGTCTTTATGCACTCTGGCTGCAGAAAGGAAAACTCCAGAGATGTGCTTTGTATCAAAAGTAATCAACTTGGTATCAGGGTCTTATGTGGCCAGATCTTTGTACCCTCCTGGGTTTGGCGTATTTCTGGGTTTCTCTGGGCCATGTAATGCTTGCTGAGGGCAGGTGGGATCCACTCATAAGCATTTTTTGATGAAATGTAAGTTGTGAGACTTCCAATAGGTACAGAGAGAGTGTATGGAATTAGGTAATAAATTCTAGCATCCCTGGAACTGAAACAGTGAAGTTGGAAGTTTCAGCCAAATGGGGAGAGGGTCATAAAAAATAGCATTAGGTTTTTGTAAGATGCTGTTTCCATAAGTGGTGGTATTTTAGCCATTTGGAAAAGAAGAGCTGAAGTTGCCATTTTGAGCGCAGCCCAAAGGCTGTGCAATCTGTTAGGCACCAGGGGAGAGTTTAGGAGGCAACACTTTGTCCTCTGAGCTGTCAAAAAGCTACGATTCTGTATAAACAGGCATCTGGTGATCCAGAGCTATGCATAGGCAAGGAACAGAAAGATGTAACCAAGTCAAAGACAGCATTTAAAGCACAAAGGAAAACTCTGCTGGTGGGGGAAAGGAGGGCAGGCTGGAGCCAGAGTGGGGGACCTGCTGATGGTCTGCTCCCTGCAAATGCTGAGGAGGTTCTCAGTGCTGGCTGGCAATCTGGCACTTTTAGCAAAGGGGAATGAGAGCACGGCCAGCAACGAGTGGAGAGAATCGCTTAAAACTGATCTTCTTGACTTCTATGCGTGTCTTTGCTTGCTGTGTTAACAG
Seq C2 exon
AACTGATTGCTGAAGAAATGGAGGAAGAGAATAAAGAGCATACGTGTGAGACGTTACTGATGTGCATTGTTACTGTACTGAGTCATGGGCTCAGGAGTGGGGGTGGAGTAGGTGATGTGCTCAGGAAACCATCCAAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008294:ENSGALT00000013506:53
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.057 A=NA C2=0.021
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(13.1=100)
A:
NA
C2:
PF0052026=Ion_trans=FE(17.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCGCACAGAACCAGGTGAAAC
R:
TTTGGATGGTTTCCTGAGCACA
Band lengths:
238-1867
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]