DreINT0078592 @ danRer10
Intron Retention
Gene
ENSDARG00000059351 | hnrnpa3
Description
heterogeneous nuclear ribonucleoprotein A3 [Source:ZFIN;Acc:ZDB-GENE-060224-1]
Coordinates
chr9:1690778-1693216:-
Coord C1 exon
chr9:1693163-1693216
Coord A exon
chr9:1691449-1693162
Coord C2 exon
chr9:1690778-1691448
Length
1714 bp
Sequences
Splice sites
5' ss Seq
ACGGTGGAG
5' ss Score
-1.32
3' ss Seq
CATTGTCATTGCTCTGATAGGTG
3' ss Score
8.15
Exon sequences
Seq C1 exon
GCGGCAACTATGGTGGTGGTCCTGGTGGATATGGAGGCGGCCGCGGAGGATACG
Seq A exon
GTGGAGGTCCAGGATATGGCAACCAGGGAGGTGGAGGAGGCTTCGGTGGATTTGACAATTACAATGATAGAGGAAATTTTGGAGGTGTGTTATGTTTTAAAGGGCACCTATGATGCAAAATGAACTTTTAGAAACCTGTTTGGACAGAAATAAATGGAGAAATAGTGTATACGCCGCCATATTAGAATGGTATAAACTCATCAAGTCCTTTTTTTTTTTTTAATAAATAATCTAACGTTAATTTAAAATCCTAATCCCAGCGATTTTTGTATAAATGGAGGGATTAATAAATTAATCAATTGAAAAGTGATAAATTATTAAAATAAAAATAGAGAACAAAATGCATGAAATATTCTACATTAGAGATTTCTTACCTTTTTTACTTCGGGTCGCTTCTCACCTCTTTCTCTGTTCAATTTTGCAAGGCCCACTTACAGCTTCCATTTCCTCTTAGGAGTTGTTTGTTTCCAATGCGCTACTTTTCTTTTGTTTTTAAATGCAAACGCGCACTTACACTCACATATTGCATCTTTTGAAGCAGTTTTTGCGAGTGCTGCATTTTTTAGACGCCGTGTTAAGTAAAAAAAAAACTTAAACTTTCACAAGCAGCACAGCTCATCACTGTCAGTTTCACAGCAGTGGACCAATCAGAAGAGCTCAGAGGCGAGACAAGCATTGCCAGTTTCTGTTCACAGGAGCTCTGTGTCCAGCCAGGTTTATGCTTTATTCTAAACTGTTCTGAACCATTGAGTCTTTTTAGAAACAAAGAGGCTCAAAACTGCTCAATTTTAACCTTTTTAATTTGTATTTTTATATAATAAGTGAATAAGTAAAGAGAATCTGGTTGAGAATCCCTTATCTACCTTAGGGCTAAAATACATTAGTTCTTTACCTGAATTTGTACCTTCACTGCAGGTAACTTTGGTGGTGGTGGAGGCAGCAGCGGTGGAGGGGGAGGAGGAAATTACAATGACTTTGGGAATTACGGAGGACAGCAATCCAACTTTGGCCCCATGAAGGGAAATAACTTCGGTGGGAGAAACTCTGGACCTTACGGAGGTACGTAAATGAATTCGGCATTCAGCATTTCACATCAGAGCTCACTGCACTCAATTATTATTTTTTTTATTAATTTTAATTTTAGCAATTACGATTCTGCTTATTGAATTCAATTTTTTTCACAAAAATTGCAGAAATAGGAAAAAAATGTCCACAAATTCTGTCTGTCATAAGTTCTGTTTCCTAACGTTTAAATCAAACAAAATCAGCATATTTTTTAGGTTGCCCGAGCTCATGTGCTCGCGAAAGGAACGAGATCACGACACCAACCTCATTTATGCCAGTGTTACACATTATCATCATCTAAATAATGATCGTCCGATTGCGCTGCTCTTCTGAAGTAATTCACAATTGGTCTTGATGGCGACTCTCCTCCAGAAATGACAGAGACTCTTTGTTTACAAGTTTGTGGGCATTTCAGTGGTTGCTGTCATGTGATGTGTATTTAGAGAGACAGACTGTACCTTGACTGTTACACTTTTTCCCATTCAAAACTATACGAGTGACACGTTTGTGTATTCTACAGTCTTTGATCTAAATGCGCGCATCATTTAGAATGCCTGTTCTTTGAAATTTAGAACAGGTTCTAAAATGGAACAGGTTCTCGATACTCTACCCTAACACTCAATCCTGATCATTGTCATTGCTCTGATAG
Seq C2 exon
GTGGAGGATACGGCTCTGGTGGCGGAGGCGGAGGCGGAGGTTACGGCTCCAGGAGATATTAGCAGATTAATTGGAGTGGTAAGTTCAGCGCCACCACTGGAAAGCAAAACACAGCCTCGGCAGACGCATAACACAGGATGACTTGTGATGTTTCACCCTGTGTCTGTTCAACAGGCCTCAGACCCCCAGTTAGAGGGTTGAGAGGAAAGAAAAGCTAACTGAGAAACAGTGGTGTTTACTGTGGTGTTTACCGTTAGCCATCAGAGAGTGTAGTCAGACACTCCAGAAACTAGCCAATGGACATTCGCTTTTCTTTGTGCTCTTCTTCTTCCCTTGTGACTTTTGTTGAGCGTAAAACCAATATTATGTTATCAAACTAACTGTAGACAGAGTTGTGAGTTGTTGTGATGTTGTGGCCCTGAGTATATCGTTTGGTTTTATATTTTTGAGTTGACTCGAAGACAGTGATGTGATTTTATTTTTTGTCACGTGTGTTTTTTTATACATCTATAGATTAGCGCACATTACATGTGTTGTTTATGGCACAGAGTAGACTTGATCAGACCTGAGGGCATGTTAATCCTGTAAAGATATAGACGTCTAGATTGTTTAACTATTTTGACTATTGAAAAAAAGAAAGCAGTTGAAATAAAGTTGTGTAGTAAATTGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000059351:ENSDART00000137210:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.274 A=NA C2=0.167
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGGTCCTGGTGGATATGGA
R:
GCGAATGTCCATTGGCTAGTT
Band lengths:
348-2062
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]