HsaINT0101818 @ hg19
Intron Retention
Gene
ENSG00000162591 | MEGF6
Description
multiple EGF-like-domains 6 [Source:HGNC Symbol;Acc:3232]
Coordinates
chr1:3422672-3424487:-
Coord C1 exon
chr1:3424359-3424487
Coord A exon
chr1:3422801-3424358
Coord C2 exon
chr1:3422672-3422800
Length
1558 bp
Sequences
Splice sites
5' ss Seq
ATGGTGCGT
5' ss Score
8.27
3' ss Seq
TGGAGCCCCGCTGCCCCCAGGCT
3' ss Score
6.15
Exon sequences
Seq C1 exon
CTTGTCCTCCGGACACCTTTGGGAAGAACTGCAGCTTCTCCTGCAGCTGTCAGAATGGTGGGACCTGCGACTCTGTCACGGGGGCCTGCCGCTGCCCCCCGGGTGTCAGTGGAACTAACTGTGAGGATG
Seq A exon
GTGCGTGCAGCCTCTTCTGGTGCTTCTGGAATTACCCCTGGGCTGTAAGGGAAGTGGGAGACACCACCCCTCCACGTCCTCCTTGTCTCCTTCCTCCCACTGGAGCAGGGAAACTGCTACCAAACTTTTCCTAGACTCCCTTTCCTTCCTGCCTCCCTGTCTCCAGAGCTTTAGGCTGTGCTTGAGAGAGAATGAGGCCCTTGAATGAGAGGGGTATTGCTTTTTCACTGTTGCTAATTTTCCCAGGGCCTAACTGTAGCAGACGATAAGACTACAGAGCAGCACTTTTGGAATGGGTTCCCTTGAGAGGCAGTGAGGTCCCTGTTCCTGGAAGCATTCAAGTAGAGCTGGTGATGGCTGGGTGAGGTTTGCAGAAGGGATTACTTGGGGGCCAGTGGCTGCAAGGGATGATGTTGGCTCCCTTATTAACTCTGAAGTTTCAGCCTTTCTGGAGGAATTAGTCCAGAAAATGTTTCCCAGGTGGCTAAAGCTTCATCTTTAAGTCTTCAGACTTCATCATTTCTGCCTCTTTCGATGGAGAGTGCAGCTAACGTATCATAAACTTTCTGCCTTTGTGAGAGGAAGACAGCCAACCCTAGAACCTGTCCCCCAGGTGGCCCCGTGAGCTTTCCTGGCCGTATGTGCTGGGCTCTGCAGGGCTGGTTGCCTGGTGGTGGTGGGGACCCCAGGCAGCCACACAGGGCTTCCTACCTCTTCCCTGTCAGTGTGCCTCCCTTCCCCACTTTGTCTGCCCTTTCTATTCTACAGGGTGCTGGGGAACCCCCGTATTCATTCCTGGGTGCTGCACCCCTGGGATCGTGCTGTACCCTCCAGGCTGCCTGCAGCGTTGAGGGGTCACCTCCCCTTCTCCAGGCCTCCTCTTTCTGTCTCGGCTTCCGCCTGCCTCTCAGATGAGGATGTTTGTCTTTGGATTCAGGGCCAGCCTGGATAATGTAGGGCTACTATGGCAAGCACTGTTGCAAGAAATGCAACTGTGCCTAGTCTCCAGGTCCTGGGGACTAGGACGTGTATGTAGTTGTGGGGGTACCTTCAGCTGACTACCGCCTTCAGTAGGAGGAAGGACGTGGGGCAGGACCCAGCCAGAGAGAATTGTTTGGGGAAGAAAGGCGAGGACCTTTCTAGCTCTGGGGCCACCTGCGGCTTGGGCCTGGGACCTTGTCTACTGGGGCCACGTGTCCTTCCCGCTTTGAGGCTCTGAGATCAAGCTTAGTGACCACCAGGGGACAGAAGTCAGGCGGCTCCTGATGGGGGCCAGACTTTGGGGAGAGTGGGGCGTGAGCTTTGTGCATCTCTCCAGTGTGGGCCGAGGAATGTGCTCTTCCACCCGCCCTTGCCACAAACCCTGGGGGCAGGGGATGTAGGGGACAGACCAGCCAGGGCAGACGGCCACATCCGGAAGGCTCACCTAGTGCCCTGGCGGGGGCTGCTCCCAGCTCCTGTGCTGGGCCCTGGGCCCCCGCGCATCCTACCACATGGGGGGACCACATGTGGTAGGCTGGCTGCCACCAAGGTTCACATGGAGCCCCGCTGCCCCCAG
Seq C2 exon
GCTGCCCCAAGGGCTACTATGGCAAGCACTGTCGCAAGAAATGCAACTGTGCCAACCGGGGCCGGTGCCACCGCCTCTACGGGGCCTGCCTCTGCGACCCAGGGCTCTACGGCCGCTTCTGCCACCTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000162591-MEGF6:NM_001409:14
Average complexity
IR-S
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=68.2)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(34.0=36.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCTCCGGACACCTTTGGG
R:
TGAGGTGGCAGAAGCGGC
Band lengths:
254-1812
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)