GgaINT0039123 @ galGal4
Intron Retention
Gene
ENSGALG00000008951 | FAM73A
Description
family with sequence similarity 73, member A [Source:HGNC Symbol;Acc:HGNC:24741]
Coordinates
chr8:17875724-17877275:-
Coord C1 exon
chr8:17877139-17877275
Coord A exon
chr8:17875851-17877138
Coord C2 exon
chr8:17875724-17875850
Length
1288 bp
Sequences
Splice sites
5' ss Seq
TCGGTAAGT
5' ss Score
11.78
3' ss Seq
AAAATTGTATTTATTTTTAGGTT
3' ss Score
9.23
Exon sequences
Seq C1 exon
GTTCAAGTTGTTCCAGTAGCCGACAAAACTTGACGCTTTCCCTGAGCTCTGCCAAGGAAAAAGGATCACAGTCATGTATCTATGCAAATGGAGGGCTTTTCAGTAAATACTCTGGTTCAGTTCAGAGTCTGGTCTCG
Seq A exon
GTAAGTAAAAGTGTTTTAAGGCATTTCACTGTCTGTTAACCTGCATTGGCTGCACATCTAATGGTTTCACTGAGCTGAAACAACTTTTCTGAATGAGCTGTATGCACCACCTCTGAAGGCTAGAGGGTCTGACTGAGCAGATGACCCCTTTGTGGAAGAAGCTACAATACTTACATTGTGAAAACAGTTTTTCAGAGATTTTATGTAACTGTAAAGTAAGTGGAACAGCCCACTGATTCTGTTCCTCTGACCTTTCCTGTCTTGCATTTATCAACTTCATAAGAATCCAGTTCCATGAGATGGAATGAGCCAAAACTATGCTACTCAGTACAGGATTCCCTTGTATCTTGCACTCACTTGTACATTCCTATATATATGTATATAAATGTAATATAAATATACACAGCTTTGATGTGTTTTAGACCCTTTAGTGAGTCAAGTGAGTTTACTGACTTGACAGTGAAATCACTTGTAATAAATCAAGATTGAATGCTTTCTTAGGTTAGTGAGTTGGATTTAATCTCCAAACATAAGAAGTGACACAAGTACCAGAAAAACCTGAATGTAGAGAGGTAGCGAGACCTTCTCAGCCACATCAGCTCCTCCTAGGTTTACAGTCTGGAACAACAGGTCTTGAGGATGCTCAAAAAGTTCTGGAGTTGTATAACTCACTGGCTCAAATGCCATAGGAGGAATAGCTTAGTATAGTTCAAAGATAAATAGAAAGAAGAGGTGAGGACCACTGAACCCTTAGTCAGTATATTAAAATGAATGAAGGTTCCTTGTGCTCCTCTACTACTTTGTAGATGCTATGGTGTGGGTTCTTCAGGCTGCAGATGACCTTCGTTTTAGTGATCAGCAGCTCTAATTAGAAACTGTTTACAGAGAAAGAAATTTAATACAGCATAGTTTCTTTGAAGTTGTGCCTAGAAAGTAGGCTTACATCAGTCTAGACAGTTCTTGTTTTTGAGACTTTTTCCCTATTTTTTAAAATAATCTACAGTCAGATTTACTTGGAGAACAATATTGTAAATCAGTGATTGCTTTCATATTTCAGAAAAGGAGCAGTACTGACTTCCAAAACATTGCTGTTAATACTAGGGTGTGATTTAAAAAGAAACAATTATACTTGGCCTGATAATAACTACACTTTTCTAAAGTCTTTTAAGAGGTAATCTGTAGATAAGGCTTGGACCATAATGTATTCCAGTAGGAATGTTATCTTAAGGATACTCTGTATAACACCACTTCTAAATCTTATTGTTTTTAAAATTGTATTTATTTTTAG
Seq C2 exon
GTTCAGAGTGCCACCTCTTGTCACAGTTGTGCTTGTGCCAATTCTAATTCCTGGGATAAAGCAGATGAAGAGGACATTAAGCTTGTTAATATTCCAGTGACTACACCTGAAAATTTATATTTGATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008951:ENSGALT00000014556:3
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:
PF102654=DUF2217=FE(23.6=100)
A:
NA
C2:
PF102654=DUF2217=FE(22.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTCAAGTTGTTCCAGTAGCCGA
R:
TAAATTTTCAGGTGTAGTCACTGGA
Band lengths:
254-1542
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]