GgaINT0082219 @ galGal4
Intron Retention
Gene
ENSGALG00000008515 | ATL2
Description
atlastin GTPase 2 [Source:HGNC Symbol;Acc:HGNC:24047]
Coordinates
chr3:15785854-15787369:-
Coord C1 exon
chr3:15787235-15787369
Coord A exon
chr3:15785959-15787234
Coord C2 exon
chr3:15785854-15785958
Length
1276 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
TGCTCTTCAAAAATCTCTAGGTT
3' ss Score
7.51
Exon sequences
Seq C1 exon
ACTTCTCCTTGCTGGATAGGTGGAAACACTGAGCCTTTGACTGGGTTTACATGGAGAGGTGGATGTGAACGGGAAACCACTGGCATCCAGATCTGGAGTGAAGTGTTTGTAATTGATAAACCCAATGGAACGAAG
Seq A exon
GTAAGTGCTTACATTTAAACAGATGCATTTAGTGATTTTTGCCTCTGGGTGAAGAGTTTTAATGCCGTGGGTTTTGTAGAGGCAATTCAAACATCAGTTGGTTCCTTTCTATTCACTAGCTGTGTAACACATTTGGAAACCTTATATCAGTGCAGGTGTGTGTTTTCCTGCTGGCATTCAATCTTCAACAATAGTCCTGTTTTGAAATTACTTTGGCAAAGTCTGTTTTGTCCAAGCCAATGGGTGGGTTATCCTGTGAATGTTTTAAAACTATGTTGGTTATAAATACTGTGTACAGACAAGTGCTGTGATAAGAACAGCTCTAACAAATACTGCTTTTTGAGTTGTGTTCTGGAGACATGTAGCACGTAGCTGTAAGCACTAGAAATGCAGCTTCAGTGATCAGAAGCTGGTGGTTCTACATAGTTCAACAGGTGGCTCATAAAAACAAAAAGCATATCTACTTGTGGCAAATACATTATGTACTAACTATACTTAACCAGAACTGGTGCACCTTTGAACTCTAAATTGCTGTAACTACAAAGTTTGATGCTTGTTTTCATGCTGAAACAGTCTTAATGTTGTCAGTAAATACTAACTCTGTAACATCAGCACTGTATTCTTAGCTGTTCTCCTGAACTGTAAACTTAACTTCCATAGTCCTTATATCGCTGAAGTGCAACAGGAACATCTGATGATTAAAAAAGAATTACTTATTTGTTATTGCTTATTTGTTGTCTGTAAATGAAAGAAAAAAAGCTGTACTAAATTCCAAAGATGGGTATTGGGCAGGTTAATTCTTATCATTAAGGCCGCTTCACTTCCATGTCACTTCAGCAGGTGGTCAGTGCCATTTGTCTAGCTTTCTTTTGAAAAGAATTAGTTTAAGACATCTGTCTGTCTTTTAAAGGAACCATCTCATACCCATATCATACTTGACTGATAATTCAGTATAGCTTATCGAAGCTGAGACTAGTGTTTTTACAGTGATTTAAGAGCTACCTTTTACTCTAACTGGGCTGAGGAATGTTATTTCTGTGGGAGAGGATGAGTAGTATAGCAAGACCAAGGACGTAAGGCTGATGCATTTATGTAGTTGCTGCTTGCTAATCTGTAGGTGTATATATAAACACTTGTAGAGGAAACTAGTGAGGCTTTAATAAGTAGGTGTGGAAGCAGAAACAATACTGTACTGTAAACAGAATTTACCCCAATGACCTGGAGTATGGAACTGTAACAATTTGGTTAACTGTTGCTGCTCTTCAAAAATCTCTAG
Seq C2 exon
GTTGCTGTACTACTCATGGATACCCAAGGTGCCTTTGATAGCCAATCCACTATCAAAGACTGTGCAACGGTTTTTGCCCTGAGCACCATGACAAGTTCTGTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008515:ENSGALT00000013868:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.044 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0226314=GBP=FE(16.2=100)
A:
NA
C2:
PF0226314=GBP=FE(12.5=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:
TTCTCCTTGCTGGATAGGTGGA
R:
AACTTGTCATGGTGCTCAGGG
Band lengths:
230-1506
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]