GgaINT0050076 @ galGal4
Intron Retention
Gene
ENSGALG00000012449 | MBD5
Description
methyl-CpG binding domain protein 5 [Source:HGNC Symbol;Acc:HGNC:20444]
Coordinates
chr7:34182533-34185398:+
Coord C1 exon
chr7:34182533-34183561
Coord A exon
chr7:34183562-34185186
Coord C2 exon
chr7:34185187-34185398
Length
1625 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGT
5' ss Score
10.47
3' ss Seq
TCCCTGTGTTTGAATTACAGGTG
3' ss Score
10.05
Exon sequences
Seq C1 exon
GGGGTTCAGGACCATCATCATCAATAGCCATAGCTGGCACCAGCCAACCTGCCATCACAAAGACAACATCTGTTCTTCAAGATGGTGTTATAGTCACTACTGCAGCTGGAAACCCTCTTCAGAGCCAGCTGCCCATTGGGGGTGATTTCCCTTTCGCTGGCCACGAACACTCGCTTCATTTCCCGCAGAACAGCTCTTCAAACAACAATCTTCCACCTTCTTTGAATCAAAACCTCCTCAGTTCTCTACCTATCTCTTTGCCAGTGAATCAGCAACATCTCCTAAGCCAGAATCTATTAAATATACTGCAGCCTTCAGCAGGAGAAGGCAAGTCTGAGGTCAACCTCAACCCTTTAGGTTTTCTCAACCCGAATGTAAATGCTGCTTTAGCTTTTCTCTCCAGTGACGTGGATGGGCAGGTATTACAGCCTGTTCATTTTCAGCTTCTAGCAACCCTCCTCCAGAACCAAGCCCAAGCAGCTGCCATGCTTCCCCTACCATCTTTCAATCTGACCATCTCAGATTTGTTGCAACAGCAAAATAACCCTTTGCCCTCAGTAACACAGATGACAGCCCCACCTGACCATTTGCCAAGCAATCAGTCAGAAAGCAACAGGGTTGAGACCCTTTTAAGCAACCCCCTGGGGAACCCTTTACCAAGCTTTTCAGGCACTGACACTACTTCTAACCCCCTGCTCCTCCCAGCTGTCTCTGGGGCCTCAGCATTAATGGCCTTGAATCCCCAGCTGGTGGGAGGTGTCCTGAACTCTGCGTCGGGCAACACCGCTAATCATCCAGAGGTTTCCATAGCCACCTCCTCCCAAGCAACCACTACCACAACCACTACATCATCAGCAGTGGCAGCACTGTCTGTCTCTACCCTGGGTGGTGGGACAGCAGTGGTGTCAATGGCAGAAACATTGCTGAACATATCTAATAATGCTGGGAATACATCTGGTCCAGCTAAACTCAACAGTAACTCTGTGGTGCCACAGCTACTTAACCCTCTACTGGGGACAGGTCTGCTTG
Seq A exon
GTAAGTTCAATTTCTTCACAGATATAAAAGGAAAAGAAAAGAGGGGTGGGGTGGGGGAATTTCTGATTCTAGTTTCTATTTCTAAAGATGACACTTTATCATACTTTTTTATAAGGCTTTTGTATGTTACAGCTTGTTTATAACTGCTCCTGTACGGCATTTGGACTATATTCTAGTTTTATTCAATAATATTTAATGCTGGTTTTGGAAATTATTTTATATTCTATTCTTAATTCTGATGCCACCTAGACTGACTATATATACACCTTACAGTTCTCTAAGCAATTGGACTTGGTTCACTTTTCAAGTCTTAAAGCATAGGTGCATCTCTAGGATGCAGTGCTTCATTACAAGTGCGTGTGGCATCACAGGGTTAGTACGAGTAGCTGTGCAGTAGGTGAGAAATGGCCAAGGGCCGCTTTCCAAATGAATCAGAAGTGCCAAAACCATCAGAAAGCACAGTGCCTGTAAAGTCAATACATCGAGCACTCAAAGCGAATACTTTGCAAGTTCAAAGAGGAAGGTTGCCCTTTGAGCCCTTTGTTGTGCATTTATGTTTTCTCATTTCTCTGGTGTTTATTTTAACGTCATCTTGGAGCTTAGATAGCCAGGGTATTTCACTGACAAGAACCAACATCCCAAACCAAGTGGTAAAGTCCTTAAATATTAGGTTTTCACCTATGTCTTTTGATGAATTTTACCTAGAATATGTAGCGTAGGCAGTACTCCTCTGTTGTTTGGACTACATAAACTCATAAATACAATAGGAGGAGGAAAAAATAGTGGCAGAGCTGATAAGTGTGGAACGGAATCCCTCATACCTACTTGCTAAATGGCTACCAGGAACTCAGCCCTCCTTGATCTTTGTCATGTAAAATATAGCTAACCAAAGATTATGCAAATGCAAATCTTAAGAGAAACATGAACTTTATATTAAAAAAAAAAAAAACTAGTAAATTGATGTATTTTCAAGCTTTATTATTTTGTAGCCATGTATACTGATTTTACTCAAACCAGAATTGTTGTGTACAGTGAGATTTTCCTATTATACAAAATGTCAATGCAGTGATTTCTCTGGAATGCTAAAAAAATTGTTTGGAGTATGGACTGAGGTGTCTGTGATCCAAAAAGCCTTTGCTCATTTGCAATTAGATTGTGTTATTTTGTCGTTATAAATGAAACAAATAATTTTGTTGGCTTTTTAAAATTATTTTCTCTTCTTCTCTCTCTCTCTCTCCTCCTCCTCTCCCCCCCTCACCACCTCAGTACTGTATGAAGCAGTCACTCTTTGGAAACTAGGAGTAAGATCCCAAGACACCGAATGTCGTAGAAGCTCATTCTGCCATACTTGGCTGTGTACCATTCCACAGGCAAAGATAGTCATGACAGAAACCTTTAGAAAGAGTCCAGATAGATGTGACATGCAAAAGAAGCAATACTGAAGAAATAAAGGAATAAAGAGTAGGAGACACATGCCTTGAGGACCATTCCATAGAAGATTGAAGGGGAAAAGTGTGGTTTTACAGAGGCATTTGCTTAGAACTCAGTTCAAATTTGAGTTGAGGAAATTCCTCCTGATTGTTGAAAAGCATACTGACTTACATTTCCCTGTGTTTGAATTACAG
Seq C2 exon
GTGACATGTCATCTATAAACACTACTTTGAATAACCATCAACTGAGTCATCTCCAGTCACTATTAAACAACAATCAGATGTTTCCTTCAAATCAGCAGCAACAGCACCTTCTCCAGGGGTATCAGAACATGCAGGGCTTTCAAGGCCAGCCCCCAATTCCTGGCCCAGCTAACAACCCAAACCCCATGGCATGTCTGTTCCAAAATTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012449:ENSGALT00000020351:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.424 A=NA C2=0.789
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
CTCCCAAGCAACCACTACCAC
R:
GCCCTGCATGTTCTGATACCC
Band lengths:
349-1974
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]