GgaINT0050077 @ galGal4
Intron Retention
Gene
ENSGALG00000012449 | MBD5
Description
methyl-CpG binding domain protein 5 [Source:HGNC Symbol;Acc:HGNC:20444]
Coordinates
chr7:34185187-34188157:+
Coord C1 exon
chr7:34185187-34185398
Coord A exon
chr7:34185399-34186948
Coord C2 exon
chr7:34186949-34188157
Length
1550 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGAA
5' ss Score
6.68
3' ss Seq
TTTCTCTCTACTTGTTTCAGGTG
3' ss Score
10.75
Exon sequences
Seq C1 exon
GTGACATGTCATCTATAAACACTACTTTGAATAACCATCAACTGAGTCATCTCCAGTCACTATTAAACAACAATCAGATGTTTCCTTCAAATCAGCAGCAACAGCACCTTCTCCAGGGGTATCAGAACATGCAGGGCTTTCAAGGCCAGCCCCCAATTCCTGGCCCAGCTAACAACCCAAACCCCATGGCATGTCTGTTCCAAAATTTCCAG
Seq A exon
GTAGAAAGCAAAATGAAATTGATATTCAAACTTATGTGCAAGTCTCAGTAGAGGTAAAATCGTATCCTCCGTAGTTTGTTTTTTTTTCTTTTTTCTTTTTCTTTTTTTTTTTGCTGAATGTTTAAGACAACATGACGTGTACAGCTCCTTCAGTAGTGTTTGGAGTTTTGCAAGTCAGTAACATTAGTACTGAAACTTGATATCTTCTGTCTCAGAAACTGGGTATAGTTTCTTTGGAAATGGTTATGCTCAATGTATTGGAAAAATAATAGGCTGACTATTACTGTGCATTTTCAGCAAAATTGTTTTCCATTCTGAAAAAAAACGATCATAAATTCCCTTTTAGACCACTCTGCTACTCAGGGGTGAGAAGGAAATGTTGATACCACTCTACAGTAATTAGAAACTTAAACGATTATTGGTGACTATGTACCAGCCTCTCATACATTCCCACTAAAATTGAATGGAAGAGCTGGCTTGGATGTGGATTTTATAGACTGTCAAAACCAGGAATGAGAATGAATGTGCAGTGGCAAATTGTGCAAAAACAATGATACCTCTCTGCTATCCTCCGAAATAGTTCTTCATCGTGCAACGTGAACTGTTCAACTAACAAACTGACAGGAAGCATAGCAACCAAAATAGTTAATAAAAACAGTTACTGTATGTGTTTGGTATTACTTAGTATTGCTGTGGTTGCTGCAGAACTCGAGACGTGAAGATGGATGCATGCATACTGCCAGAAAGTGCTTTTTTCCCTTAAGAAGGAAAAAGAAGATGTGTCATTCTCTCAGTGTAGACAATTCACTGCCACTGCAAAATCAGTCCTCTAAGCGCCTGTTACCTCCCTTTGTTTGTGAATGAATTCTAATAGCTTCATCTCAGTATTTTTTTGCTTCAGATTCTCAGTTATATAAATAGTAGTGGTAAGTACTTAGGGGAGCTTTTGGAAATATTTTGCCCTTGTTTGAAGCAGTTTTTTTTGTTGCAGCAGTATTAATGACACCATCTTCACTGCCTGCATGTGTGACAAGAAATATAAAACACAGTTACTTTCATCTGAAGGTTACAGTTTGCTGTGGCCATGCCTGACATTACAGATGCAATGCTGAGGGGTGCGGGCATGGTTTACACAGGTCTGAAGTAAAGACATCCCATGAGAGAAGCACATGACTGAAAGGCAGAAAATAGAAATGCTAGCCAGTCGGAAAAGAACAGTGATGGCCTACATTCCAGAAACTGAAAGAGGGATGTAGAGGGAGCCCAGAGGAACAGCTGATAGGGAGGGCCAAAGAAAATTTGGGGTTCTGAAAAGGAGCAAAAGAGAACAGTTGAGAACAGAAATATTGAAGTACTTCATGGTGTTGTTAAAGATTTGGGAGAGAAAAGGCGGGAGCCTCTAAAAAGACTCTGAAAAAGGAGTTGAAAACATAGGCTCCGTGGTAGGTTGTATCATTTCCATTTTTTTCTAATTAAAATAAGACTGTTTTCTATTGAAGTGGGATTTTAAGCACAGCAGCAATTTCCATCTTTCTCTCTACTTGTTTCAG
Seq C2 exon
GTGAGAATGCAGGAAGATGCTGCTGCCCTGAACAAAAGAATGATCACTCAGATGGGAATGGCACCAGTTCCTGAGAGCTCCAACGCTATGCTTCCTCCTTTCCAAGAAACATCTTGTGATTTGCAGCAAAGAACTGAACCATCTCTTGGTCAACAGGCAAAGGATAACCTCAATGTCGCTGCTCAGGGTGATACATCAGTGGATGCGATCTACAAAGCAGTCGTAGATGCTGCAAGCAAAGGAATGCAAGTAGTGATCACCACTGCCGTTAGCAGTACCACACAGATGAGTCCCATTCCAGCTTTGAGTGCCATGAGTGCCTTCACAGCCTCAATTGGTGACCCGCTAAATCTCTCTAGTGCTGTCAGTGCAGTAATCCATGGAAGAAACATTGCTGTTTCTGATCATGAAGGTAGGATAAGAAACACTAGAGGAACGCGAGTACTGAAGAATTCGGAGCATGGTAAAAATTCAAGTGAAGGGGATGGGTATGAATATTACAAATCAACAAGTTGTAACACGCCCAAAAAACAGTGGGAAGGGGAGCAAAGTCCTGTCGGTGAGATAAATAGGTGGAAATGTGAGGAGTTTCTAGACCACTCCACCCATATCCATAGTAGTCCTTGTCACGAAAGGCCCAATAACATCTCCACACTGCCATTATTGCAAGGTGAGCAGCATCAGATACTGTTATCACAGAGAAACTGTCAAAGTGATAAAATGTTGGAGGAGAATTTCAGGTATAACAATTACAAAAGAACTATGATGAGTTTTAAGGAAAGACTGGAGAACACTGTGGAACGCTGTGCACACATAAATGGAAATAGGCCTCAGCAGAACAGAGGATACGGGGAGTTGCTGAACACTTCTAAACAAGACCTGATTCTGGAAGAGCAATCTCCAAGTTCCTCAAATAGTTTGGAAAGTTCGTTAGTTAAAGACTACATCCATTACAATGGAGATTTTAATGCCAAAAGCATTAATGGGTGTGTGCCTAGCCCTTCAGATGCTAAAAGCATCAGTAGTGAAGATGACCTAAGGAATCCAGATTCCCCTTCTTCAAATGAGCTGATACATTACAGGCCGAGGACGTTCAATGTTGGCGACTTGGTCTGGGGCCAAATCAAAGGACTGACTTCATGGCCTGGAAAACTAGTAAGAGAAGAAGACGTTCACAATTCATGTCAACAGAACGCTGAGGAGGGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012449:ENSGALT00000020351:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.789 A=NA C2=0.514
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0085512=PWWP=PU(46.3=9.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGTATCAGAACATGCAGGGC
R:
TTGCATTCCTTTGCTTGCAGC
Band lengths:
345-1895
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]