DreINT0095018 @ danRer10
Intron Retention
Gene
ENSDARG00000079199 | megf6a
Description
multiple EGF-like-domains 6a [Source:ZFIN;Acc:ZDB-GENE-090312-12]
Coordinates
chr23:21232399-21233536:-
Coord C1 exon
chr23:21233408-21233536
Coord A exon
chr23:21232528-21233407
Coord C2 exon
chr23:21232399-21232527
Length
880 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGT
5' ss Score
11.45
3' ss Seq
CTGTACACTTTGTTCTTTAGGCT
3' ss Score
8.4
Exon sequences
Seq C1 exon
CCTGTCCAGAGGGAACATTTGGTAAAAACTGCTCCTTCACTTGCAAGTGCAGAAACGGGGGCACCTGTGACCCGATTAGTGGGAAGTGCCGCTGCCCACCTGGAGTCAATGGAGACCTGTGCCAGGACG
Seq A exon
GTGAGTGACTGAATAAAATGAACACCTATCTGTGCCAAATCTGATGTTCAAATCACTGTTGGTATGTTAATATGAAATAGTTAACGTTAAAATGCCCTTGATATGTTTTTTTTTTTCTTCTAAATGTTATGTTTCATGCAGTGTGCTATTTAGCAGTTTTATGAATGTAAATGTTCTGCAATGTTTCAAAGATCTAAGCATGTTAAATGAAGTGTTTGTATTTAAAAGAAAGAACCATTTCTGAACTGTGTGTAATGAGTCATCAGTAGTTTGAGTTTTACTTTAAAGTAAACCTACAGCATATAGGTTTTTATAACATTTCAAGCTTTGGTTTGGAACTCTCAAACAGTGTTGCTGAGACCTGATTGAGTTTGGTTTGTATTGTCAACGTGTTGAGAAGTTTCTGTTTTCTGTTTGTATGCACTCAGTAAAGGAAAATCGATAAGGTAAAACTGACACCATTCTGTCTTTATGTTTTTGGAAATTTGGGTTAGACACATGCTGTAAGTCGTAGACCAATCACAACTTACTGGGCCATTTATTTGTCCTCATTTGTAAGTCGTTTTGGATAAAAGCATCTGCTAAATGACTAAATGTAAATGTTATGTTGACCAATGACAGCAAAGTAGAGTGTCAAAAAAGGTTAAAAGAGACCGGATCCTTGAATGAACCATTTCAGAGACTGAGAAAAAAAAGAGCAAATACTACGATTTTTATTATGAGAAAATCAAAGCTATTCTAGTTATACAGTAGATTCATGTAAACCTATTATAAGTGTCCAACCAAAAAAAAAAAAAATTAAAACTATTAAAAGACTATAATAGGGGCACTTCAATCTTCACATAAAAGCTGAAAGTAATCTGTACACTTTGTTCTTTAG
Seq C2 exon
GCTGTCCGAAGGGAATGTATGGAAAGCACTGCAACAAGAAATGTAACTGTGCTAATAACGGCCGCTGCCATCGCACATATGGAGCCTGTCTGTGTGATCCAGGACTCTACGGCAGGTTCTGTCACCTCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079199:ENSDART00000143206:11
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(63.0=65.9)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(34.8=36.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCAGAGGGAACATTTGGTAAA
R:
TGACAGAACCTGCCGTAGAGT
Band lengths:
249-1129
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]