HsaINT0061418 @ hg19
Intron Retention
Gene
ENSG00000180488 | FAM73A
Description
family with sequence similarity 73, member A [Source:HGNC Symbol;Acc:24741]
Coordinates
chr1:78325725-78327007:+
Coord C1 exon
chr1:78325725-78325811
Coord A exon
chr1:78325812-78326908
Coord C2 exon
chr1:78326909-78327007
Length
1097 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAC
5' ss Score
8.14
3' ss Seq
AAATGTGTTTTCTTCTTCAGAAT
3' ss Score
9.97
Exon sequences
Seq C1 exon
GTAATTCTTTCAGAATCAGCTAACAGGATATTCCTCGCTGAGAGCGGAAGGAAAATTTTATCAGCTTTAATTGTGAAAGCACGAAAG
Seq A exon
GTAAACTTGTTCTGTTGGCAAGATTTTTACCATTTACAAAAGTTGTTTTTACCCTTTGAACTGAAGATTAAGACATTAAATTTTTGATAGAAGAAAAATTTTTGTGGATAGTTGAAAAGGGCATTAAGTTATGCTCGGGTTGAACTATGTATAAAGTCCACACTATTTCAACCAAGTTGTTTCTCATAAATTATTTCCAGTTTGCCATAAACTCTGTAAATGTCATGGTGAGAATTATCATTAGATCTGCTGCTATAACCATCACTGTTATTATTACTAATGCCTCCTCTTTTATTACCTCAATCCTGTTCAGGAAGAGGGTTACAGGAAATAGCGTAGGTCTCAGAAATCTGGAATACAAATTGAACTGCCTCATCTTCATGTAGTTGAATGAGGCAGAAGCAATGACAAGAACTTCATTCAGACTGTAAGGAACCACCTTACTTTATGCAAGGTTTGTCCAGATGATGATAAAACAAAACAAGCCTTCCTTGAGCCATTTGCACACCTAGTTTTCAGACTCAATCCCTTTGAACTTTAATTCTTTCATTTATATAATAGAATTGTATTTATATTACCTCATTTCAGAGGGTTTTTAGGATGATTAAATAAATGATAAATGGGAAGCAACTTAAAGAATAAAGTGTTAAGTAGTGTAAAGCTAAGTATATGTAAGGTGATACTATTAATACATGCAATTCCCAATGTAAGTCTTGTGTTGCTTTCTTGGCCTTCTCATGACAGATAAACTCAGTGATTTGAACTAGGGTTCCTCCAAAAGAAGCAGAACTGCAACAAAAGCCTCACATAATGTCTGCTATAACCAAATTTTCATTTTAATTACTGACCAAAATAGGCATACATATTTGAGTAATAAATAGTTTGCTTGTGACATTTTACTGACATTCTTTATCTTGGCTTCTGCAAAATGTTGCAATAGCAAAGTAGTAAACCAGATAAATTTGGCATACCTTTAAAATGTATTTTAGTTCAGTTACCTAGTAGAATTAAGATCTACCAGACTTATTTGAAGAGTAACTTTCTTTGTAGCTTGTTATAAAGTTGAGTTTAGGGTTAAAATGTGTTTTCTTCTTCAG
Seq C2 exon
AATCCAAAGAAGTTTGAAGATGTTTTTGATGAAATGATCTATTTTTTAGAGCAGACCGATCACTGGGGTAGTACTGAAATGGAACTTGCTGCTAGAGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000180488-FAM73A:NM_198549:11
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:
PF102654=DUF2217=FE(5.1=100)
A:
NA
C2:
PF102654=DUF2217=FE(5.9=100)
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:
TTCTTTCAGAATCAGCTAACAGGA
R:
CCCTCTAGCAGCAAGTTCCAT
Band lengths:
182-1279
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)