DreINT0014417 @ danRer10
Intron Retention
Gene
ENSDARG00000074808 | MEGF6 (1 of 2)
Description
multiple EGF-like-domains 6 [Source:HGNC Symbol;Acc:HGNC:3232]
Coordinates
chr11:41110850-41112762:-
Coord C1 exon
chr11:41112631-41112762
Coord A exon
chr11:41110979-41112630
Coord C2 exon
chr11:41110850-41110978
Length
1652 bp
Sequences
Splice sites
5' ss Seq
AGAGTGAGA
5' ss Score
2.37
3' ss Seq
TGTGTGTGTTTTTGTGTCAGCGT
3' ss Score
8.05
Exon sequences
Seq C1 exon
GTTGTCTGCCTGGCACGTTCGGCCAGGACTGTAATCAGGTGTGTCAGTGTTCAGAAAGAAACCAGCTCTGCCACCCGGTGACTGGAGTGTGTTACTGCGCGCCCGGATTCACTGGACTCAAGTGTGAACAGA
Seq A exon
GTGAGAGAAAACAACATCTGATGCTGATGCTCTTGGGTGTTTAAATGTCAGCTGTATTTTTCTACACAATCTCTAATGTTCAGATGCTGTTGTTTAAAGCCTTAAATGGAAAAAAAAAACTTTGATCGCTTACTGCGCTTCACACCAAGGTTATATGATATATAAATCAATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATTAGCCCCTTTAAGCTATTTTTTGACTGCCTACAGAACAAACCATCGTTATACAATAAGTTGGCTTTAAATGTCTCTTTAAGCTGTATAGATGTGTCTTGAGAAATATCTAGTCAAATATTATTTACATGGGGGCAAAAATAAACATGGGGGCTAATAATTCTGACTTCAACTGTGTGTGTGTATATATATATATATATATATATATATATATATATATATATAAATATATATAAACTAACAATAAAAATGTTAGATTAAAATTATTACTAAAATTGTATGAATTGTAAACATGAAAAAGTTAAACAAATAACTAAGTGAAAACACACTTGAACACTTATTAAAATGTAATAAAACTATGGTGAAACAAAACACTTGCAAATAAATCTAAGATATTTAATATATTAAATTTGAATAAAACACTCAAATTATAACTTTACACAAAACTTAAAACTCTTAATAAACAGTTATAATATTGTGGCAAATGTCAAGTAAAATGAACTTTTACAAAAGTATATACAAAAAGTTTTTTTTTAATCATAATAATGTAAAAAGTAAATTAAAAGCCAAAGAAAGTTAGTAAGACAAATAAAATATATTCAAATCATACATTTGTAAGAATATAATTGCAATTAGAAACGTAAAAACAAAGTAGTACACTTTCTAAAACTGAAAAAAAATCAAAACATTGAACACCCCAAAACATTATTATTATTATTATTATTATTATTATTATTATTATAATTATTAAAATAGGCGACGCAGTGGCGCAGTGGGTAGCACGTTTGCCTCACAGCAAGAAGGTCGCTGGGTTGCTGGTTTGATCCTCGGCTCAGTTGGTGTTTCTGTGTGGAGTTTGCATGTTCTCCCTGCGTTCACGTAGGTTTCTTCCGGGTGCTCCGGTTTCCCCCACAGTCCAAAGACATGCGGTACAGGTGAATTGGTTAGGCTAAATTGTCTGTAGTGTATGTGTGTGTGTGTGTGTGTGTGTGTGTGCATGTTTCCCAGAGATGGGTTGCGGCTGGAAGGGCATCCGCTGCGTAAAAACTTGCTGGATAAGTTGGCGGTGCATTCCACTGTGGCGACCCTGGATTAATAAAGGGACTGAGCCGACAAGAAAATGAATGATTATTAAAATATGTCTACAGATAAAGCAATAAAAATATAAAACATTTTATCCACCTGCCTGCTGTATGCATGTGAACAGGTCAACATGTTGTATAAGTTAAAATATTTACATGTAAAGTCAATGTTCAAAGCTGTTCAGCTGAAAAATAGAGCAGTAATTATAACTCTGAGCTCAACTGTTGCGTCTGCATATGGAGATTTTTCAGCAGTGTTCTGTAAATGCATGTTTGTGATGTGTGTGTGTGTTTTTGTGTCAG
Seq C2 exon
CGTGTCCGCAGGGTTTGTACGGCTCAGGCTGTGAGCATCAGTGTGAGTGTCTGAATGGTGGAGTTTGTCTCTCAGACTCGGGATCCTGTCAGTGTCCAGCCGGATTCATTGGAGCTCAATGCAATCAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000074808:ENSDART00000109204:30
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=PU(63.8=66.7)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(34.0=36.4),PF126612=hEGF=WD(100=29.5)
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:
TTGTCTGCCTGGCACGTTC
R:
TTTGATTGCATTGAGCTCCAAT
Band lengths:
260-1912
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]