DreINT0095020 @ danRer10
Intron Retention
Gene
ENSDARG00000079199 | megf6a
Description
multiple EGF-like-domains 6a [Source:ZFIN;Acc:ZDB-GENE-090312-12]
Coordinates
chr23:21227362-21227964:-
Coord C1 exon
chr23:21227830-21227964
Coord A exon
chr23:21227497-21227829
Coord C2 exon
chr23:21227362-21227496
Length
333 bp
Sequences
Splice sites
5' ss Seq
GCGGTCAGT
5' ss Score
6.52
3' ss Seq
GTGTTATCATTGCTTTTCAGAGT
3' ss Score
8.87
Exon sequences
Seq C1 exon
CTTGCCCCAAGTGGTCGTATGGATCTGGCTGCTCATCCGAGTGTCAGTGTGTGCAACAAAACACGCTTGAGTGCCATCGACGTCATGGAACGTGTGTGTGCAAACCTGGCTATCAGGGGAAAACCTGCAACCGCG
Seq A exon
GTCAGTGCAAGAAGCACTAATCACTTGTTTAACAGCATGTGTGTATGAATTACAGTAAATATGCAAGAAGGAAATACTGTATGTAGGAGGTATGTATCACTGTACTGTATGTATGTAAACTCAAAAATGACCTTTGCTGCATATTCTTGTTTTAAATTAGTTGAAACAACACAATAATTAAGTTTTTTTTTTTTTTTTTGTAAAAATGATTAGGTTAACTCGAAGGACATAAAGGAATTGTATGAAACCCAGCATTTTTTACAGTGTCAGAAGTAAATATGTTCACAATAATTTGTCTTATGTTGTATCATTTGTGTTATCATTGCTTTTCAG
Seq C2 exon
AGTGTGATAGTGGATTTTATGGTCCAGGATGTAGATTAAAATGCCAGTGTCCAGCGGGAGTCTCTTGCCATCCCATGAGTGGGCAATGTCAGCGTCAGTGCCCAGCAGGCCTACATGGGGAGCACTGTGACCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079199:ENSDART00000143206:13
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(74.5=76.1)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(23.4=23.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTGCCCCAAGTGGTCGTATG
R:
CTCGGTCACAGTGCTCCCC
Band lengths:
270-603
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]