DreINT0095033 @ danRer10
Intron Retention
Gene
ENSDARG00000079199 | megf6a
Description
multiple EGF-like-domains 6a [Source:ZFIN;Acc:ZDB-GENE-090312-12]
Coordinates
chr23:21208591-21210251:-
Coord C1 exon
chr23:21210120-21210251
Coord A exon
chr23:21208720-21210119
Coord C2 exon
chr23:21208591-21208719
Length
1400 bp
Sequences
Splice sites
5' ss Seq
CAGGTCTGT
5' ss Score
6.84
3' ss Seq
ATGTTCTATTGCTGCTGTAGAAT
3' ss Score
6.87
Exon sequences
Seq C1 exon
TGTGCCAGTCAGGTACGTTTGGGGTAAACTGTAATCAGGTGTGCCAGTGCTCTGAGCTCAACCAGCTCTGCCACCCCGTCACTGGTGTCTGTTACTGTGCTCCCGGATACTATGGCAGCAAGTGTGAAACAG
Seq A exon
GTCTGTATTATTAGTATAATTTTTTTTCATTCATTCATTCATTCATTCATTCATTCATTCATTCATTCGTTTTCTTTTCGGATGAGTTCCTTTATAAATCAGGGGTTGTCACAGCGGAATGAACCGCCAACTTATCCAGCATATGTTTTACGCAGTGGATACCCTTCCAGCAGCAACCCAACACTGGGAAACTGTTTTATTTTTAGCAGTTATTTTTTTCTCTTTTACATTTGAGTAACATAAATATTTTATTTTCTACTTGTGATATATTATTGTATAGTTATGTTTTTGAGTGAAGCCTTTTAGTTTTATTCTGTAAACTACTCATGATATTCCTTCTAAATGTAAAATAAAAATGCTGTTGTTTAGAGCAGATTTTTCTTTTTCATGTGATTATTAAACAAGGATCCATGTTTTTGAAAAGTGTTTATAATTCATTTTTGTGAATGTTTTAACATCAGAAGTTCATATTTGGTGGAATAACCCCAATTTTCAATCACAACAAATGAAAAAAAAACATGGCTAAATAACAATATACTGTATATAGGTCTATATTTTTATTTGTAAAAAAATATTATCAGGTCTCATAAAATAAACACATATTAACATAGAGCATGACTTTACCCATACTTCATATGGGCATATACTTTACTGTATGTACAGTGCTCAGCATAATTGAGTACACCCCATTTTGAAAATGAATATTTTTCTCCATTTCTTTGTGAATATAATCAATGTATTTTGGTGCATTTAAACAAAACAGAAATTGAAAGATAATACAATTAAATTCAAGCAAATATTGGAAAAAACCCTACAAGATTTCAACAAAATTTTTCTCCTTTTTTGTTTCTCTTGATTTTTTCTTTTTTTAAATTTGTATTTCATAGGTTTTTATAACTTAAATTTGGGTGTACTATTTTTTTTAAACCATTATCCTAAGTTATTTTGTTAGATAAGCTCCAGATTTGGCTTCAGTACTGACTAATCTAATGTATATGCATAAATATAGTATTGTATAGCTTCTTAATAAAAATATGAATTTAAAAAATAGACTTGTGAGGGTGTACTATTATATATGCTGAGCACTGTATATAAAAATATATATATATTTTGTGCAATTCTCCTTCAGTTGCGGCATTATTGGCACCAAAACTGACATTTTAAATGATTTTATCAAATACTGTATTTCTTGACAAAAGTGTTGGAAGATGTTTAAGATCAAATGCGAGAATTAATGTGTGAATAATACATATATATTAGTTGAAATGTTTTACTGTATGTAACTGTCAAATAAGCAGTTTCTGTCTACCTTTCTATGTAGCATACATACAAATTTACATTCATTGATACATTCATTTTATGTATTAAAAAAACTCAACTATGTTCTATTGCTGCTGTAG
Seq C2 exon
AATGTGAAGCGGGCCGTTATGGACCCAACTGTGAGCAGGAATGCCAGTGTCTGAATAACGGTGTATGTAAAAGCAGCACTGGCACCTGCAGCTGCCCACCGGGATTCATCGGACCAAACTGCAACATCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079199:ENSDART00000143206:26
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(67.3=77.8)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(30.8=36.4),PF126612=hEGF=WD(100=29.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGCCAGTCAGGTACGTTTGG
R:
TGTTGCAGTTTGGTCCGATGA
Band lengths:
257-1657
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]