DreINT0083572 @ danRer10
Intron Retention
Gene
ENSDARG00000014655 | itpr1a
Description
inositol 1,4,5-trisphosphate receptor, type 1a [Source:ZFIN;Acc:ZDB-GENE-070604-3]
Coordinates
chr6:39953657-39955165:+
Coord C1 exon
chr6:39953657-39953851
Coord A exon
chr6:39953852-39954913
Coord C2 exon
chr6:39954914-39955165
Length
1062 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
TAGTGACTTGTCTCTGTCAGATA
3' ss Score
5.2
Exon sequences
Seq C1 exon
GCTTGTGTTGTCACGGTTTGAGGTGGCAGGAACGGTGTTGGGTGAAGGTGCGGAGGAGGAAGAGGAGGATGAAGAGGAGGTCTGGCTGTTCTGGAAGGACAGTGGAGGAGAGGTGAAGAGTAAAAGCATACGAGAGCTTGCACAGGACGCAAAAGATGGACATACAGAGGACCAGGAAGTCATCAATTATTACAG
Seq A exon
GTAAGGACAAAAACACCTACTTGTAAATAGGATGGAGTGATGCGGAATGTTTCATTTAATATTATGTAATTATAACTAGAGACGCACTAAATTTTTTCCCTTGTAAAAATAAATAAAGATGTGTTGTACTGCCTTGCAGTTTTCAGCGGAAAATAAATTTCTGCTCAAATAACATGCCGACAGGACATTACTCTATAGCAGGGGTGCTCAACCCTGTTTCTGGAGATCTACCTTCCTGCAGATTTCAGTTGCTACCCATATCAAACATACCTAAACCAATTAATTAGGACCTGAAAACCATGTGATAATTACAGGCAGGTGTATTTGATACTATTATAATTGAAATCTACAGGAAGGTAGATCTCCAGGAACAGGGTTGAGCACCCCTGCTCTATAGTATACTTGTTCCTGCTGCTAGTGTTCTGTCATAGCAACAATCTCGACTCTCGGATCTTCATTCATTTATTCATCCATTTTACTTTGGCTTAGTCCCTTTATTTAACTGCGAACTTATACAGCATATGTTTTACACAGCGGATACACTTACAGCTGCAACCCAGTACTGGGAAACACCCACACACGCTCATTCATTTAGGCCAATTTAGTTTATTCAATTCACCAATACTCACGTTTCTTCGGACTGTGAGGGAAACCAGAGGAAACCCACGTGAACACAAAGAGAACATGCAAACTCCACACAGAAATGCCAACTGGCCCAGCTGGGACTCGAACCAGCAACCTTCTTACTGTGAGGAGACAGTGCTAACCACTGAATCACTGTCACCTCTCAACTCATTTACTTTTGGTTAAATTTTACTGTCAATATAATGTGGTAATTTTATTGGCTTAAGTTTTTTAATAAATAACATTTTTAAGTTGTTGAGTTAAATTTAGAAAGTGGTACAAAATTTTATATATTATTCAATTAAATAATAAATAATGATTATTTCAAATCTATTTAAAAAAAAAGATTGTTTTTGGTCAAATGCATCCAGAATTGTAGTTTTTGGCCCAGAATGTTTATTTCAGTGGATGACTAACATAGTGACTTGTCTCTGTCAG
Seq C2 exon
ATATCAGCTGAATTTGTTTGCTCGGATGTGTCTGGATCGACAGTATCTTGCGATTAACAAGATATCAGCACAGCTGGATGTGGATCTGATTCTGCGCTGCATGTCAGATGAAGATTTGCCCTTTGACCTCAGAGCATCGTTCTGCCGCATGATGCTGCACATGCATGTAGACCGTGACCCTCAGGAGCAGGTCACCCCGGTCAAATATGCTCGACTGTGGTCTGAAATCCCATCACAAATTTCCATTGATGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000014655:ENSDART00000149019:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.106 A=NA C2=0.012
Domain overlap (PFAM):
C1:
PF0136516=RYDR_ITPR=PD(5.6=12.1)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGATGAAGAGGAGGTCTGGCT
R:
GTCGAGCATATTTGACCGGGG
Band lengths:
344-1406
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]