GgaINT0056646 @ galGal4
Intron Retention
Gene
ENSGALG00000012339 | ATL1
Description
atlastin GTPase 1 [Source:HGNC Symbol;Acc:HGNC:11231]
Coordinates
chr5:57770285-57771128:+
Coord C1 exon
chr5:57770285-57770389
Coord A exon
chr5:57770390-57771077
Coord C2 exon
chr5:57771078-57771128
Length
688 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
GTTTCTGTGTTTACTTACAGGTT
3' ss Score
10.86
Exon sequences
Seq C1 exon
GTTGCAGTGCTGCTGATGGACACACAGGGGACCTTCGACAGTCAGTCCACCCTGCGGGATTCAGCCACTGTGTTTGCCCTGAGCACAATGATCAGCTCAATACAG
Seq A exon
GTAAGAAAGGAGATGTCTCCAGGAAACAGTTGCTAAAAGGTGGTGGCTGAAAACCAGCAGCTTGGCACCAGCCTAATGCAGCTGGGGGAGAGACAGAGGCCAGCGTGTTGGCTGCACTGAGTGCAGGGTTCAGTCGTGACTGCACCATTGCAGGGAACAGTCTCATCTCCTCATCTCACCCTAAGAGCAAAACCAGCAGCAGATGCACTTCTTTACTCCCAGCTGACAGAGAGGAAAGGATGTTGGTCTGGTGAAGTTCATGTGCCTTTGTCTCAGTGCTGCTGGAGAAACCTCTGGGCTGAGGGTATTCTCACAGCAGGCGGTTCCTGTGTAGTAGTAAGGCTCCCCTTCCCTTTCTCTGATTTTTGCTTCTGGAGGACAGCATTAAGAGGATGTCTTGAGACAGAGCTCAGCACATCATATACGTGGAGGAGAGGAAACATTACTTACGCCTAAGAGGCTTCCTGGATGGGACAGGACAGCCCTTGCTGCTCCCATGCTGGAGCGTTTTGCTGAGCTGGGAGGAGCAGTGCCTGTCTGTCTGTCTGTCTGTCTGTCCGGCAGTATGGCTATGCTTGGAGCACCAGGGGCCAGCTGGGCCTTCGTCTGTGTCCCCATGGTCACGTTGTAAGCTTTAACCACATTGATCCAAGGGACAATGCTCTGAGGTTTCTGTGTTTACTTACAG
Seq C2 exon
GTTTATAACTTGTCGCAGAATGTGCAGGAGGATGATCTGCAGCACCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012339:ENSGALT00000020162:3
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:
PF0226314=GBP=FE(12.5=100)
A:
NA
C2:
PF0226314=GBP=FE(5.9=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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]