DreINT0115985 @ 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
chr12:4914855-4917830:+
Coord C1 exon
chr12:4914855-4915775
Coord A exon
chr12:4915776-4917684
Coord C2 exon
chr12:4917685-4917830
Length
1909 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGA
5' ss Score
9.46
3' ss Seq
TGTGTTGTGAATGTATGCAGGTT
3' ss Score
5.82
Exon sequences
Seq C1 exon
GTCTTCCTAACCCATTCAGAGGTTTGCTAAAGCTGGGTCAGCTGGAGCGACGCAGCGCGGTGGGTATGTGGTGGGATTATTACTGCGAGCTCTCGCCATTTGAGCTGCGCCTTTACGTCAATGCAGAGGAGCGCGTCTGCAACGAAAACCTGTCCCTGCTGCGCTGCGAGGACATCCACCTGTACTCCAGCACCGAGGGCCGATTTCGGCTCACCTTCCCTAACAAAAGAATCTACCTGCGTGCGCCATCTAAAGGAGAAGCGGAGGACTGGGTGGACCGAATCACAGAGGCTGTCAACAAACTACGGCCCATTATGAGAGATGAACAGTGGGAGGTGCTGCACACGTCCAGCGATCAAGAAGTCACATCTCCAGCTCCATCAACACCTGAGCACACCATCTCTGAGCTTCCAGATCCTCCACAGTTAGATTGGACTCGGCATAAAGACCCAGAACCAGACGCCATAAAGGAGGCGGTGGTCTATCAGAGCTTGGAGGAGAAGGGCTGGCGGTGTCTGGTGCTCTCACTCTCTCTCGAGATCCTCAGAGGTTTCCAGGTCCGAGAAGACTCAAAGACACCACTTTTCTCACTCCCCATTGGGAGCATCCGGGATGTGGTTCCTGATGTTTCTCTGGGCAGTCCTGCGTTTTTTAAGGTTTTGACAGTGCGGGACACGCTGACGCTGAGGGCGGAGAGCGGTGAGGAGGCACGAGGGTGGAGGAGTCTGATCAGAGGAGCGCTGGACTCCTATCTGGAGACGGAGGATGATGGAGCGGGAGCCTCAGCTGCTGACGGTGCACAAGGAGGAGTCGTCCACAAGCTTGTCCAACACAGACTGAAGGGAGACGGAGAGCTGCTGTTACACCTGTCTGTTGTGCCCATCGAGAGAGGACTGGACGCACAGAATTACAGATGTGCAG
Seq A exon
GTATGACTGGTTGGGCATGTTGTTTTTATTCACCTTTTCCCAGTTTTTAGATGCTTTGCATGAATCATGAGAGTATCTAACATTAAAATCAGCATGAAATCAAAATGTTCAATGTTTATTTTCGAAGGTTAAGGTGATTGATTAATCAGTGGAAGTTAATGTACTTTTATCAAAGTCTGATCATTCGCAATTAGAGTGGAGGTCCTCTGTTGACGTCAACCTTCCAAAGCAGCTGTTTATCAAGATTCTTAACCACGTCCCTCTAAAGCCTGGTTTATACTTCTGCGTCAAGTGACCGGCGTAACTCACGGCGCATGCAACGCGCGCAGCTGTGCATTTAAACTTCTGCGCGCTGTCTCTGTTGGTCTGCATTAACACTTCCGAAACGCTAGTTGGCAGTGAGGTGTAAATGTTCCTCTGTGTCGAGTTTCTTCGCTTCTGTTTTGCTTTTCCTGAACACTTCCGGGATGTACAAGTGGCTCAAACTCGCTCATTTTGAGACAGGAACCGGCGGACGTGCAACAACTTTAACTATGAGGTAAACACAAAACAGAACTTTCCATCCGGAGCTCATTCATGGGACTCCACACTTGTAAACAATCACTCGCGCCATTCGCACGGCTCTCGGTCCCACCCAGACTCGTCAGCACTACCAAGCCGACCAATCACAGAGCTTGCGCTACGCGTTGTTGCGACGTGTAGTTACATTTTTTGAGAGGTGCACGTCAGTGACGGCGATGGCCACGGCGAAGGGCTATGCGTCAGCACCGTAGCATACGCCGGCGTTTGACGAAGAAGTATAAATCAGCCTTTAGAGTTCTATTTTAATGATCAAGGTGCAAAGCGTGTGGCTCAAAAGCATTAAGTGTGTGTTCGAATCCACTTTTGCTATTTTAAGAATGGAAAAATATAGTTTGCACCCGCGCACATGGTCTAACAAAGTTGTGCTTATCCTGTTAATGAGTTATAGGTGTGTTTTGAGCATAACGTACATTAAACCAATCATAGTCTCATCTCCCATTCCCTCAGTTTATTTCAGTTCCTCAAAATAGCAACGCACCAACACTGAGCCTTAACACACTTCCTTTTAAGACCGGAACACCCATGAGTCCACAAAGTAGCACAAATTGATTTGTTATTTAAACAAAGTGGCGCAAAACGTGAAATTTACAGTTGCTCTGGTCTTAAAATAGCAAGAAATCGCACCAAACACATCTTGCACCTTATTGCGTCGGATTTATGATAGGGTTTATACTGTTAGTTGCGATGATGGAGTGATGTGCAAAAGAAAGCCCCGCTTCCTACTCAATATTCAGATTCAGTTGGGTGTACATCAGCATTCTGAAATAAAAGTCTCTACAACTTCCTGTTCTGATTTAAACTGTAAGCAATGTTTAAAAAACAAATACAAATGAGTGTATTATTATTATTATTATTAGAATTAGCAAATTTTAGCAGACCATAAGTGACCTCAAACAAGGTAAGGCAATATTATTTACACACAGTTGACAACATAATCATTAGTCCTACTGTGAATTTATTATAACTAGTTTCTAACAACTGTTTCATTTAGTCTCTTCTGTGATGACAGTGGATAATACTTTACTAGTTATTTTGTAAGATACTAGTATTGAGCATAAAGTAAAATTTAAGGCTTCGGCTAACTAGGCACATTAGGTTAATTAGCCAAGTCATTGACTGGACAACAGTAGTTTGTTCTGTAGTCGATCAAAAAAGTAATAATTCTTAAAGGGGCTAATAGTATTGACAACAACTGAAAGCAAAATGAATTCAAATATTATGATGTTTTAAGCTAGATTTTTACTGAGGAACCAAGTTTATGCTGGGCTCTGATATGCAAGTGCTTTTCAGTGTAGCGGTGACTAAAGTGTGTTGTGAATGTATGCAG
Seq C2 exon
GTTGCTCTCGTCAGATCGGTGTGTCTCTGGGCAGAGGCAGACTGTGTGAGTTCTCCGGTCAGCAGTTCTGTGATTCCTGCCATCAAGGAGACATGAGCATCATCCCCTCCCGCATGCTGCACAACTGGGACCTGAAAACTCGCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000099954:ENSDART00000171525:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.140 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0016924=PH=WD(100=29.9)
A:
NA
C2:
PF139011=DUF4206=PU(17.2=71.4)
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:
ATCCGGGATGTGGTTCCTGAT
R:
CCCAGAGACACACCGATCTGA
Band lengths:
347-2256
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]