DreINT0115984 @ danRer10
Intron Retention
Gene
ENSDARG00000099954 | plekhm1
Description
pleckstrin homology domain containing, family M (with RUN domain) member 1 [Source:ZFIN;Acc:ZDB-GENE-030131-2752]
Coordinates
chr12:4911846-4915775:+
Coord C1 exon
chr12:4911846-4912014
Coord A exon
chr12:4912015-4914854
Coord C2 exon
chr12:4914855-4915775
Length
2840 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGA
5' ss Score
10.65
3' ss Seq
TGTGTCTCTGTCTTCGTCAGGTC
3' ss Score
10.62
Exon sequences
Seq C1 exon
AAATCTACATCTTGGATCTCAGAGGAGGATTTCCACAAACCCGAAGACTTGAGTATTTCTGAAGCTTATGCCATCATTGACGTCACTCCGATGAACGGGCAGGTGTCTCCTGTGTGTGAAGCAGACGAGCTTCAGCCTCCTCCCAGTGTTGTGCACCGGAGACACAACG
Seq A exon
GTAAGATGGAAAAAAGATGTTAAACGTCATGTTGTCTGCCTAATTCTGTTGCCTTTAATTTTGCCTGTATTTATAACTTCCTTCTTTGAGAATAACGACCTTAAAAAAAACAATCAGTCATTTCTGCACTTCCTTTTAATGGGTTTCATGTAGATATTAAGTGCTGTGAGAACCTATAAAAAAGCTGCCAATGGTTAAAAATGCTCCACGTGTACCACATGGTATGAAAGCCACACGATTTCTATGCAAGATCATTGCTGTCATGGCCAAATAAGCCAGATATGATGGTTATGTTTTTCATATCTGGGTCTAATCTGTCAACTAACTGTGAACTAAGTCATAGTGATAATAAAAGACAGAATTATTAATTATTCAAAGCAATCCTGTTTAAATGTAATGTTCCAGATAAGAAAAGTATCAAGAATAAATCAAATCTGTTCCCAAATGCTATAGCAGTGGGACTTAAGATTGGATCTTAAATTTCTCCATACTTGATTGTAACTCTGAATATTTCAAATTTGCCAATGGGGTTTAAGCAAACCATTTTAAACGATAGTTGATTCAAAATCGAAAATTCTGTCATTATTTACTCACTTGTTCCAAACCTGTTTGAGTTTCATTCTTCTGTGCAACACAAAAGAAGATCTACTGAGACATGCTGGAAATAGTCATTGACTTCCTTAGTATGTTTTGTTCCTACTATAAAACTCTGTTATATCTCAAAGAAAGTAGTTCATTAAAAACAATAATTACACCATGAATCCAGATGTAGATCACACAGCCCTAGCCACATAACAAATGAATATGTTATCATGAATATTTCTGTACAATTTTAAATGAACTATGCCTTTGTTACTGATAACTTCAAGCTCAAGTTTAAAAACAGCTCTTGCATCCGTATAGCTCAAATAGTAGAGCAACAAGGTGGATTTGATTCCTGAGAAATACAAGAACTACTAAAATGCAAATCACTTTAAGGAGTCCCTGTTTTAAAAAGGTTGAACGGTCTTAAAAGGATGATTCTGTTACATAATTTGCAATATTACAATGCCTTTCTCCCCAGCCTGGCATAAGTAGCTCCGCTTATTCCGGGTTTTATAAAGGCCTGCTTTCTAAATTGTGTTGTGATTGGTTAGCTGTCCTATTGCGTTTGTGAGTGGTGAAGAGCCTGGACAGTGTTTCAGTTCTGCCACGCTATCCCTCTAGCAGCCGCTGAGGGATGAGCCAGAGAATGACAAGTGTATTTTTCCTCTTGTCAAAGATCAAATCTTATCACAGTCTTTAGGGTGGTGTATTAGCAGCCTCTGCTGGCTCCAGAGAGCAACTAATATAACAATTATTGAGATGTTTAAACAATACAATGTTTTCTTACACATATTTAAGTATCTGAAAGTCTAATATTTCACAATATTAACAATTTGAGCTGAGAACATTGCTTGCATGCATTTATTTTTACCTAATTATCCCAGCGACACCCATATTAGGGCTGCTCGATTTTGGAAAAAATCATAATCACGATTATTTTGGTCATAATTGTAATCGCGATTATTCTAAATGATTATCAGTTGAAGTCAAAATTATTAGCGCTCCTGAGAATTTAGTTTTTTTAAAATAACTATTTCCCAAATTATGTTAAACAGAACAAGGAATTTTAACAGTATTTCCTTTAATATTTTTTTTCTTCTAGAGAAAGTCTTATTTGTTTTATTTTGGCTAGAATAAAAGCAATAAATATTTTGAAACCCATTTTAAGGTCAATATTATTAGCCCCCTTAAGCAATATATTTTTTGATTGTCTGCAGAAGAAACTACTGTTATACAATGACTTGTCTCATTACTCTAATTAAACCTTTGAATTGCACTTTAATCTAAATGCTTGTATTTTGAAAAACATCTAGTAAAATGTTATGTACTGTCATCATAGCAAAGATAAAACAAATCAGTAATTAGACATAATAAAACTATTGTGTTCAGAAATAAGTTTAAAAAAACTTCTTTCCATTAAACGGAAATTGGAGGAAAAGGGTTGCTAATATTCTGGAGGGCTAATAATTCTGACTTCAACTGTATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATGTATATGTATATATATATATGTATATGTATATGTATATATATATATATATATGTATATGTATATGTATATATATATATGTGTATATGTATATGTATGTGTGTATATATATATATATATATATATATATATATATATATATATATATGTGTGTGTGTGTGTGTATATATATGTATATACAGTTATTTTCCACCCTGCAAAGGAAAGAGAAATAAATACAACAGAATAAAAATATAAAACAAACTGTGATTTTTCTCGTCGTTTGATTAATGACAAAACAGGCGGCAGCATTTTGACACCTGTTTGACCATTAAAGCGCTCATGTTAAGATTACTTAAACTGACCGTGTGCTTATGCGTGTGCGGGTGCTGCCATTTAATTCTTTTTGGCTTGAGACTGCCGGTCTCATTCACTTCCATTCATTTTTTGATGTTAAAAACTGCTCATTACGCTGCTTGATTTTGCAATTTGATATTTTCTTATTATATTATTCTACTTGGGCAGTATAGTCATGCAAACATTTGTTTGCAGAACAAGTGTTTGACCATTTTCTCCCATAGGCGACTGAATCGGAAGTTCTAAGACAATCGCGAAAACAGGCGCACTTCCGCATTTTAGAACAAGGTCAATAAAGCTTCTGTCAAATGCATAATTGTAAGCTGTGTGATCAGAAAAATGTGAATGTGTGTCTCTGTCTTCGTCAG
Seq C2 exon
GTCTTCCTAACCCATTCAGAGGTTTGCTAAAGCTGGGTCAGCTGGAGCGACGCAGCGCGGTGGGTATGTGGTGGGATTATTACTGCGAGCTCTCGCCATTTGAGCTGCGCCTTTACGTCAATGCAGAGGAGCGCGTCTGCAACGAAAACCTGTCCCTGCTGCGCTGCGAGGACATCCACCTGTACTCCAGCACCGAGGGCCGATTTCGGCTCACCTTCCCTAACAAAAGAATCTACCTGCGTGCGCCATCTAAAGGAGAAGCGGAGGACTGGGTGGACCGAATCACAGAGGCTGTCAACAAACTACGGCCCATTATGAGAGATGAACAGTGGGAGGTGCTGCACACGTCCAGCGATCAAGAAGTCACATCTCCAGCTCCATCAACACCTGAGCACACCATCTCTGAGCTTCCAGATCCTCCACAGTTAGATTGGACTCGGCATAAAGACCCAGAACCAGACGCCATAAAGGAGGCGGTGGTCTATCAGAGCTTGGAGGAGAAGGGCTGGCGGTGTCTGGTGCTCTCACTCTCTCTCGAGATCCTCAGAGGTTTCCAGGTCCGAGAAGACTCAAAGACACCACTTTTCTCACTCCCCATTGGGAGCATCCGGGATGTGGTTCCTGATGTTTCTCTGGGCAGTCCTGCGTTTTTTAAGGTTTTGACAGTGCGGGACACGCTGACGCTGAGGGCGGAGAGCGGTGAGGAGGCACGAGGGTGGAGGAGTCTGATCAGAGGAGCGCTGGACTCCTATCTGGAGACGGAGGATGATGGAGCGGGAGCCTCAGCTGCTGACGGTGCACAAGGAGGAGTCGTCCACAAGCTTGTCCAACACAGACTGAAGGGAGACGGAGAGCTGCTGTTACACCTGTCTGTTGTGCCCATCGAGAGAGGACTGGACGCACAGAATTACAGATGTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000099954:ENSDART00000171525:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.316 A=NA C2=0.140
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0016924=PH=WD(100=29.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Chicken
(galGal3)
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]