HsaINT0023600 @ hg19
Intron Retention
Gene
ENSG00000154479 | C2orf77
Description
chromosome 2 open reading frame 77 [Source:HGNC Symbol;Acc:25064]
Coordinates
chr2:170505692-170507031:-
Coord C1 exon
chr2:170506839-170507031
Coord A exon
chr2:170505857-170506838
Coord C2 exon
chr2:170505692-170505856
Length
982 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAAC
5' ss Score
3
3' ss Seq
CTTTGCCTTTAAACATCTAGATG
3' ss Score
6.86
Exon sequences
Seq C1 exon
GCTTATGGAGAAACGAAGAGAAAGAATACATAACTTCCTGAGTGAACTGTTGAAAGAGAAACTTGACAATGAAGATATGATTATTGCTAGAGATATTGCAGAAGCTGAGGCTGAATGGGAAAAAAGAGAAAGAGAAAAAGATGAAAAAAACAAAGCAGAATTAAAAACAATTGCAGAATATCGAGCCATTGTG
Seq A exon
GTAAACAATTCAATTATGAAAATAAAAATAGAAAGACAGAGTTAGGACCTTTCCACTGTGTTTTCCATCTCATCTGCCTCTCTAACCAAAAACTAGCCAAGATATTAAAAACAATGTATGAATTATCTTCCTGTATTTTTGAAATTGGACAATGTTTACTTCCTAACAAAGATGACACGACAGTTACAAAAAAGATATTTATAGATGCAAAGTAATAATCTCTTCTGTTTCAGAACCATCTGAAACGCAAAGGTTATTTGTTATACTTTTCATTTGTAGGTTTTAAAGACAAACCATGTAAAAATTATACATTTCTGTTTCTTAATATTTTAAAACATATCTTACATGACTGTCATAACATTTAATTTGGATAGTTTATACACATTGGAGCAATTTTTTTTTTTTTGAGACAGAGTTTTGCCCAGGCTAGAGTGCAGTGGTGCGATCTCAGCTCACCTCAACCTTCGCCTCCTGGGTTCAAGCAATTCTCCTGCCTCAGTCTCCAGAGTAGCTGAGATTACAGGCATGCGCCACCATGACTGGCTAATTTTGTATTTTTAGTAGAGACAGCGTTTCTCCATGTTGGTCAGGCTGGTCTCGAACTCCTGACCTCCCGAGGTGATCCGCCCACCTCGGCCTCCCAAAGTGCTGAGATTACAGGTGTTGAGCCACCAAGTATGGCTGGAGCAATTAATTTTTTACTTACATATATTTCCCTTCCTTGAGAAGATCTTGCTTTTCATCTTTTTCAAGCCAATAAGGATTGTCCTATAGCACTTGGGTATTTTCTGATATTCAGGAAATAGAACAAAACCAAAGTAAACTGGCCGCATGGGAACCACCCCAGGTGCATGCACTTTTCTGCTCCTGCATTGCTCCTGGCTGACTCTCCTCTGCTTCAACTCTCTGACTCTGTGCCTTTTCAGACAAGACTGGTTGCTATAACTGGTTTTATATGTTTCCTTTGCCTTTAAACATCTAG
Seq C2 exon
ATGAAAAATAAAGAGGAAGAAGAAAGACAAAGAAAAATAGAGGCTAAAGAACAATTGCTGGCTGTCATGAAAGCAGATCAGATTTTCTGGGAACATGAAAAGGAGAAAAAATGCAAAGCTGATAAAGAACATCAAGAGGTTCAAGATGCCCATATTCAGCAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000154479-C2orf77:NM_001085447:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.323 A=NA C2=0.418
Domain overlap (PFAM):
C1:
PF138681=Trichoplein=FE(19.0=100)
A:
NA
C2:
PF138681=Trichoplein=FE(16.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTTATGGAGAAACGAAGAGAAAGA
R:
TGGGCATCTTGAACCTCTTGA
Band lengths:
345-1327
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)