GgaINT0082219 @ galGal3
Intron Retention
Gene
ENSGALG00000008515 | ATL2
Description
NA
Coordinates
chr3:17403976-17405503:-
Coord C1 exon
chr3:17405369-17405503
Coord A exon
chr3:17404081-17405368
Coord C2 exon
chr3:17403976-17404080
Length
1288 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
GTAAGTGCTTACATTTAAACAGATGCATTTAGTGATTTTTGCCTCTGGGTGAAGAGTTTTAATGCCGTGGGTTTTGTAGAGGCAATTCAAACATCAGTTGGTTCCTTTCTATTCACTAGCTGTGTAACACATTTGGAAACCTTATATCAGTGCAGGTGTGTGTTTTCCTGCTGGCATTCAATCTTCAACAATAGTCCTGTTTTGAAATTACTTTGGCAAAGTCTGTTTTGTCCAAGCCAATGGGTGGGTTATCCTGTGAATGTTTTAAAACTATGTTGGTTATAAATACTGTGTACAGACAAGTGCTGTGATAAGAACAGCTCTAACAAATACTGCTTTTTGAGTTGTGTTCTGGAGACATGTAGCACGTAGCTGTAAGCACTAGAAATGCAGCTTCAGTGATCAGAAGCTGGTGGTTCTACATAGTTCAGCAGGTGGCTCATAAAAACAAAAAGCATATCTACTTGTGGTAAATACATTATGTACTAACTATACTTAACCAGAACTGGTGCACCTTTGAACTCTAAATTGCTGTAACTACAAAGTTTGATTTCAGATGCTTGTTTTCATGCTGAAACAGTCTTAATGTTGTCAGTAAATACTCACTCTGTAACATCAGCACTGTATTCTTAGCTGTTCTCCTGAACTGTAAACTTACTTAACTTCCATAGTCCTTATATCGCTGAAGTGCAACAGGAACATCTGATGATTAAAAAAGAATTACTTATTTGTTATTGCTTATTTGTTGTCTGTAAATGAAAGAAAAAAAGCTGTACTAAATTCCAAAGATGGGTATTGGGCAGGTTAATTCTTATCATTAAGGCCGCTTCACTTCCATGTCACTTCAGCAGGTGGTCAGTGCCATTTGTCTAGCTTTCTTTTGAAAAGAATTAGCTTAAGACATCTGTCTGTCTTTTAAAGGAACCATCTCATACCCATATCATACTTGACTGATAATTCAGTATAGCTTATCGAAGCTGAGACTAGTGTTTTTACAGTGATTTAAGAGCTACCTTTTACTCTAACTGGGCTGAGGAATGTTATTTCTGTGGGAGAGGATGAGTAGTATAGCAAGACCAAGGACGTAAGGCTGATGCATTTATGTAGTTGCTGCTTGCTAATCTGTAGGTGTATATATAAACACTTGTAGAGGAAACTAGTTGAGGCTTTAATAAGTAGGTGTGGAAGCAGAAACAATACTGTACTGTAAACAGAATTTACCCCAATGACCTGGAGTATGGAACTGTAACAATTTGGTTAACTGTTGCTGCTCTTCAAAAATCTCTAG
Seq C2 exon
GTTGCTGTACTACTCATGGATACCCAAGGTGCCTTTGATAGCCAATCCACTATCAAAGACTGTGCAACGGTTTTTGCCCTGAGCACCATGACAAGTTCTGTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008515:ENSGALT00000013868:2
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
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCTCCTTGCTGGATAGGTGGA
R:
AACTTGTCATGGTGCTCAGGG
Band lengths:
230-1518
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]