DreINT0120526 @ danRer10
Intron Retention
Gene
ENSDARG00000058467 | prpf40a
Description
PRP40 pre-mRNA processing factor 40 homolog A (S. cerevisiae) [Source:ZFIN;Acc:ZDB-GENE-030131-274]
Coordinates
chr9:4741010-4743995:+
Coord C1 exon
chr9:4741010-4741126
Coord A exon
chr9:4741127-4743857
Coord C2 exon
chr9:4743858-4743995
Length
2731 bp
Sequences
Splice sites
5' ss Seq
AGTGTAAGA
5' ss Score
4.57
3' ss Seq
TGATGTGTTTGTGTTTTCAGTTG
3' ss Score
9.38
Exon sequences
Seq C1 exon
GATAAAGGTTTCCTGGTGGAGATCAACACAGGCTTTGAGGACTTTGGCTCAGTGATCAGCTCTGATAAACGCGCCACCACGCTTGATGCGGGAAACATCAAACTGGCCTTCAACAGT
Seq A exon
GTAAGACCTTTTAAACTGCCACACTGTTTTATACTTCACACTCATTTAAATACAAAAAACTTGAAATATGTACTTTATAACTACAGTTTGAAGCGGTGTAAAAGATTCCCGTGTTAAAGAAATCATCATTGATAATGTAATTATTATAACCGAGCTTCAATAAGAAAGGTATTAATTTTATTTGTATGGTTGTTCTCACAGAATAATTGCTTTAAAAACAACAGCCTAGATGTACAATGTTCCACTCACTACATAGCTGCTTGGCACAAAATCGTTACACACAAAACATTTGATCAGGGGCCAGTGCCATGAAGACAAATGAGCTGGTTAGCCAGTTAATTTCAGTTTAGTTTGCACCAATCTTGGTTTTTCAGTACTATAAAGGTCGCTTGTTAGCTTTAATCACTCTTTGTTGGATGGTATATGAGGATGCACAGCTAACCTGCTCTGGACCAGGTTATGTTCAGGATTAGAGATTCCACCAATTTACTACAAGCAAAGTGACAATTCTGATGCAATAGAGAGACTTCTCCCAGTTTTTCTTCAAACAAATTAAAGTTCATTGTTTATAAATTCCCCTAAATATAAAATCTTCCTATTTTAGTGGGGATACGTATTAAAGGTTAGCTATTTATAATTATCTGAGATGATTTATTTAACCGTTAAATCTGAAAACACCACCAGCCTGAACCGTTGATACAAGGCAGGATGGATCCATGCTTTCATGTTGTTGATGCCAAATTCTGACCCTACCACCTAAATGTTGCAGCAGAAATTGACCAGGCAACGTTTTTCCAGTCTTCTATTGTCCAATTTTGGTGAGCCTGTGTGAATTGTAGCCTCAGTTTGCTGTTCTTAGCTGACAGGAGCAGCACCCGGTGTGTTCTTCTGCTGCTGTAGCCCATCTGCCTCATCTGCCTTAAGGTTGAACTAGCTGAAATCAGTCTGACCATTCTCCTCTGACCTCTGGCGTCAACAAGGCTTTTGCGCCCACAGAACTGTCACTCAATGTTTTTTCTTTTTTTTTTTTTACCATTCTCTAAACCCTAGAGAGGGTTGTGCGTGAAAATTCCAGTAGACCAGCAGTTTCTGAAACACTCAGACCAGCCTGTCTGGCACCAACAACCATTCCACGTTCAAAGTGATGCTCAGTTTAAACTACAGCAGATCACCTTGACCATGTCTATTTCCCTAAATGATTAAGTTGCTGCCATGTGATTTGGCTGATTAGAAACTTGTGTTAACTTGCAGTTGAACAGGTGTACCTATTAAAGTGGCCAGTGAGTTGTACAGCTGCAATATAAAATTTCTTTTTTCATTTAAAGATAACGCTTTGGAAAAAGATTACATATGTATAGATTTTTATTTCACAGTGAAGGGACAGTATACATTGATCAAGATTATTTGAGCATGAAATATATATAATATAGCCTAAAGTCTAGTTTTCATTGGTGATCCGTTTGTCAATGCTATAAGCCTAAAAACCAACAAAAATAGTAATTCAATTTATATTCAAGACTCAAATATACAAGCATTCAAAGATTTATACGATAAATAACTAATGTTTGAGTTAATTGAATTTACAATTGAGTTAAATGTTAAACATTCTCTGATGTAACACTAGTGGTGTAACATTCCACTGATGATTTCAGATTTGAGTTTCTGTACACCTGTACAAAACATACTGTCAATGTTATCTGACAATAGCAAAGCTTTAATATGATGTATCATTTGTAATTCAGAAATGTAAATATTTTCTTAATGTCCTCATGTTGTTTCAAACCTAAGATTTTCTTTTTTCCAAACCCAAATATATAAATATTTTTTATGATACCTGAGTGATTTCTGTCTCTCCATTTAATGTCCTTTTTCCTAAAACAGCCAAAAATCCAATTGGTAGGTTCTTTGTAATTTGTATCAAATTGTGGCTTCTTAACTACTTGACGGCATTTGAAAAGCACATATTTTGCCCCTTTTACAAGATGTAAGATAAGACGTTGTGCCTCCAGAATGTGTCTGTAAAGTTTCAGCTCAAAATACCCATCAGATTATTTATCATGTACTGTAGCATCTGCCCATTTTAGTGTCTGAGGACAATAGAGCAGTTTTTTTGTAGCCTTTAACTGCAAATGAGCTGCTTCTCCCCGCCCACCGCTCCGATGTGCATGTCTGCTTTTCATGCGTTACGTCAGATAAACGGCAGTCAGTGACAGAGACAGACACTGATGAAGCTGAAATGAGGTTACTAGTCAAAAATACCAAATAAGTTTATTTGATGTATTTGTGGTGGAGCTTATTCAAGCCTTTCTGAAATGATGAGTCACACACAAATGCTGTTTTCATTACACACACAAACACATGCGCCGTGTGGCCGTGGTGATTATAGCAGTGGTGTATAGCAGCGAAGTGGTTACATGGCGATTTTACTCTATTTTTACTTTATTTTACTCAATTTTACTTTATTACAAACATGTAGTTTTACAAATCTTTTAAACTTAAAAAACTAATTGTTAATCCCAGTTTCCTTGCAAAAAAATTGTCTTGTTTACAGAAATAGTAAGTCAAAATAAAGTGAGTTTTTCTTTTAAAACAAGTAAAATAATCTTCCTCTGGGGTAAGCGAAATAAACTTGTCTTCTCTTAGGAGTAAGCTTATTTTACTTAGCCCATGACATCAGCCACGTTTAATGTATACGTATAACGTATAACTTTTGATGTGTTTGTGTTTTCAG
Seq C2 exon
TTGCTCGAGAAGGCTGAAGCACGAGAGCGGGAGAGAGAAAAAGAGGAGGCCAGAAAGATGAAGAGGAAGGAAGCGGCGTTTAAGAGCATGTTAAAACAGGCCACACCCCCTCTAGAGCCCGAGGCCACGTGGGAGGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000058467:ENSDART00000081326:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.870
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0184614=FF=PU(46.2=52.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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]