DreINT0078589 @ danRer10
Intron Retention
Gene
ENSDARG00000059351 | hnrnpa3
Description
heterogeneous nuclear ribonucleoprotein A3 [Source:ZFIN;Acc:ZDB-GENE-060224-1]
Coordinates
chr9:1693882-1696393:-
Coord C1 exon
chr9:1696183-1696393
Coord A exon
chr9:1693936-1696182
Coord C2 exon
chr9:1693882-1693935
Length
2247 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGC
5' ss Score
8.72
3' ss Seq
GTGTGTGTTTCTGTTGTCAGACC
3' ss Score
8.05
Exon sequences
Seq C1 exon
GACTCTAATAAACCCGGAGCTCATCTGACAGTGAAGAAGATCTTTGTCGGCGGGATTAAGGAGGACACAGAGGAGTATCACATCAGGGAGTACTTTGAGTGCTACGGCAAGATTGAGACCATCGATATCATGGAGGAGCGCTCGACTGGGAAGAAGAGAGGATTCTGCTTCGTCACCTTCGACGATCACGACACCGTCGACAAAATTGTTG
Seq A exon
GTAAGCTTGAATGGAAAGGATCACTTTCAATGGCTAGTCAGACAAAGCAGAATACATATTTTATCTGTAAATTACAAGACTAAGTAAAAATAAACAACATTTTATGATGTTTTTATTTATTATTATTTTTAATTATTAGTGTGCATGCAGTAGGTCTGCATGATACTGAGAAAATATGCAAAATTCGACGTTGTCATTGAATACTGCGAACAATATTTCTTACAGTTTAACATTTTCCTACAGAGATACTGTTTTATTTGTGAATTGTGTTTCATTTATGTAATGATCATACTAAAATCAACAGATATTACATATTTTTCGTATCTAATTCAAGCAAAACAAAACTATTACGAGGCGCTAGCATTCACAACTGTTTCAGAGGCGAGGCGTAAGGCTAGTCTTAAATCAATTTACATTCATTCATTTTCATTCAGTTCTTATTTATCAGGGGTTGCTACAGCGTAATGAACCGCCAATTATTCCAGCATGTTTTACTTAGTGGATGCCCTTCAAACTGCAACCCAGTACTGGGAAACACCCATACACTCACATTCACTATAGCCAATTTAGTTCATCATTTCCTCTGTAGCGCATGTGTTTGGACTGTGGGGGAAACTGGAGCACCCGGAGGAAACCCACACCAACACGGGGAGAACATGCAAACTCCACACAGAAACACCAAGTGGCCCAGCCGGGACTTGAACCAGCAACCTTCTTGCTGTGAGGCCACAGTACTAACCAATGAGCCACCATGCCGCCCCCCTTGTACATCAATAATTCGATTTCTATTTTGATTGTGAAGAGATGCGTAAAAAATCCATCTGAAAAAATGCTGTTTTTTTATTGTAGGAACAAAGCCTTTCAAATCCTTTAAGACCCTCAAAAATGCATGAAAATACTGACATTTAAGTAATAAAAAATAAGAAATAGCAAGTTAGATTTATTCCCAATTTCTGTGTTTCATCATCTTGATGTAGAACTGTTCATGGTCATGTTGTGTCGACTACCTAATACTATGTAAGACATACCGGTTCTAACAGGTCTGATACAGTAGCTGAGCACGCACATTTTACTTCTGCCTTTTAAGTGATTTTTTAATTTTTTTCCTTTTTAATCAGCACAAAAATATCACACAATCAACTCTCATAACTGTGAAGTCAGGAAAGCTCTTCCCAAGCAGGAGATGCAGTCCTCTTCCAATCAGAGGTGTAAGTAGAGCTATTCACATCGTCTCCAATAGACCCTTCATAATTTGTTTAATTATGTCACTGTGTATTCAGTTAAATTCAAATTATCTTTATTTTTTATTGCACTTTTACAGTGTAGATTGTGTCAAAGCAGCTAAACACAGACGTTCTAGTAGGTTGAAACTGTGTCAGTCCAGTTTTCAGAGTTTCAATATCAGTGTGGTTCAATTTTCACTGCTGAATGTCCAAACACTGAAGATCAAATCCATCAATACGCAACTCTACAAGTCCCAAACCAAGCAAGCCAGTGGCGACATGTTCTATATATGTGTTTATAGGTATTAAAGGCGCAATATATTTGAGTATTTCCATTAAAATCACTAGTAAAGGGTTTTATATTTTGCTGACTTATGTACTTATATTATCCCAAATGTTTTGGTGAATGTTCAAATGCAGAGAAATAAGCAGTTTTAACTAGTGAAGCAATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTTATTTAATCCTAGGTTTGGAAACAGTAGCAATTTAGGCCACGTTTACACTAAAAGGTTTTAGTTTTAAAAGGTTTAAGTTTTTTTATGGATACACCTTCCTTCCACACTTCGCCAGAGTTTTCCAGCCCTGAATATGGAGCGTTTTGGAAACAGTTAAGAAGCCATTTTGGTTTTAAAAAGCTGATGTTCCATGTCAGTGTGGATGGGGAAAACAGAGACAGCTGTTTGACATCATTTATGGCCCAGTTTGGAATCGGAAAGAGTCAACACTGGCAAAAAAATAAGATTCAGTATATTTTGGATACTCAAAGTTGACAGAATTGGATGATAGAGCAAAAAAAAAATCTTAGTAGACACACCACAACTCCAAATATAGCAGTGTTTATTTTGTATGATGAAGACCACAACTCCCATGAGTCCACACTCATTTGTTTGTTGTGAATGCACACCCTCTAATGGAGAAAATCACATGCTGTGCCTTTAAGAGATATCCTGCTGTCCAGTTTGGGATGGTCATATATGTGTGTGTTTCTGTTGTCAG
Seq C2 exon
ACCGTGGTGGAGGTGGTGGTAATTTTACGGGCAGAGGAGGAAACTTTGGCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000059351:ENSDART00000137210:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.076 A=NA C2=0.926
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PU(81.4=80.3),PF059186=API5=PU(40.9=63.4),PF072928=NID=PU(33.3=21.1)
A:
NA
C2:
PF0007617=RRM_1=PD(15.9=57.9)
Main Inclusion Isoform:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]