DreINT0093769 @ danRer10
Intron Retention
Gene
ENSDARG00000059581 | mbd5
Description
methyl-CpG binding domain protein 5 [Source:ZFIN;Acc:ZDB-GENE-070209-125]
Coordinates
chr6:37364-38788:+
Coord C1 exon
chr6:37364-37758
Coord A exon
chr6:37759-38685
Coord C2 exon
chr6:38686-38788
Length
927 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
GTGTGTGTGTGTGTGTGTAGCCC
3' ss Score
8.02
Exon sequences
Seq C1 exon
GAGCCATGGGTGTGCGAGAGCGGCCCCTGAGTGGCCCTTGAGTGCCGCAGACGCGTGTCCTGACCTCACTTCTTCTTCTTCAGTCTCCACTCTACTTCTTTCGGACTCTTTCTCATGGCTCCGGCCGGCCGGACTGCAGCGGCGGCGGGGTCTGTGTCTGCATGCGGCGCTGCGCTGGAGACGCCGTGCCGTCTGTGACTCCGCCCCTGAGCTGGACTTCCTCTTCTGAGCGTCAGGATGCGACGCGGCGCCGACACGCAGACGAGCGCCTGATCTGCAGGAGTTTAGCACTGGACCATAAACATGAATGGTGGAAAAGAGCGGGAGGGTACCTTCGCCCAGGTGCCCATCGGCTGGCAGAGGAAGCTGGAGGCCTCCGGTGTCCTGTACATCAG
Seq A exon
GTATGTATGCATAGGCCCCTTTACACTGATGCAGTTTAGTTTTAAAGCGATCCGCGTCCACACTGGTGTTTCAGCTAGTGTTTCTGAACAGCTCTCCGTCCACACTACACTGCTGCACACACACATCACGTGACCACACACACACACACACACTATGTGCGCGTCTGAGCTCCAGGCAGTCAGTGGGTGTTTAAGCACAGCTCTCCAGGTGAGAGCAGTGCAGGTCAGACAGCTGATGAAGGATCTCCTGCTCGATCTGATCTCATTTTAGTTGGTAATGGTGGTCTTGAACTCATCTGGTCTCCATCTGATGACTCTCGGCTCTTCTTAATCTATTCTTGTTCTCAGGTAAGGTGTCTTAGCTGAGTGCAGAGATCAGTTTCTTTATTAATGTGTGTGGGCTTAAATTTAAAGAGCCCCTATTATACATGAAATATGGTCATATTTTGGTTGTAAGTGTCTCCAACAACAGTCTAATGCATGCAAGGTCAAAAACACTTTCATGGTCTTATAATCTGCATTTAGTTTTACCTGATTATCCCAGCGACTTTCATATGAATCGTTCAGCGATTCATCTGTTACTGAACACCTCCTTAGCGTGAAGCTAATCTGCGCTTTGTTGGTCGACACTGACTGCCTTCAGAGCGAGACAGAGTGAAATGCCCAGCAGCTAATCAACAATATTAAAGTAGTCAGAGTGCACACGCTTCAGCTTCATAGTGCGAGGCGTGGATTTTAGATGTGAATGCTATTATAGACGATGGACTTTTAAATACCGAAAATTAATTTTGCTCTCTCTCTCTCTCTCTCTCTCTCTCTGTTTCTCTCTCTCTCTCTCCCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCACTCTCTCTCTCTCTCTCGCTGTCTGTGTGTGTGTGTGTGTGTGTGTGTAG
Seq C2 exon
CCCCAGCGGATCAGTGCTGTCCTGTCTCGAGCAGGTCAAGTCTTACCTGCTGACCGATGGCACCTGTAAATGTGGTCTGGAATGTCCACTCATCCTCCCGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000059581:ENSDART00000082954:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.129 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0142914=MBD=PU(33.8=77.4)
A:
NA
C2:
PF0142914=MBD=FE(47.9=100)
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:
GACTCTTTCTCATGGCTCCGG
R:
CCATCGGTCAGCAGGTAAGAC
Band lengths:
352-1279
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]