GgaINT0046054 @ galGal3
Intron Retention
Gene
ENSGALG00000009287 | ATF2_CHICK
Description
NA
Coordinates
chr7:17797977-17800724:+
Coord C1 exon
chr7:17797977-17798046
Coord A exon
chr7:17798047-17800627
Coord C2 exon
chr7:17800628-17800724
Length
2581 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATG
5' ss Score
9.43
3' ss Seq
CTTAAAACTTTCTGCCACAGCGT
3' ss Score
6.6
Exon sequences
Seq C1 exon
GTAGCACGACGACCTGTGGAATATGAGTGATGACAAACCCTTTTTATGCACTGCCCCTGGATGTGGCCAG
Seq A exon
GTAATGGTCTGACTCGAAGTTATTAACACTGGTTGAATAAAAGTAAAAAAGTGAACCATATTTCCAGAGACTGAAGAGAAGTGACTTAACTGGTAGAAAGTACCCACGTTTTCCAGTTCTGCTGAAAAGCAGGTGGCAGCAAGAATTCCTGGTGTTTGAACTGTCAATTTATTCAGAAGTATACTAACTATATAATGAAGACAATTTCCTTTCTTAGCCCTGTCTTTTTTGTTTACATGAAAAAGTGTGTGTGTGCGTGTGTATATGTATTCACACTCAATAAATGTGCAGGTAACCAACATTTTTCAGTATATTTCAACTTTAATGAGGAGCTCACGGTGAAACTTACAGGATTTCTGTGTTTAGTAAGTCTGTTAAAAAATTCACTTTTCTTTGACTTCACAGTAGTTTAAAACTGATGAATCTTCCCATCTATGGTGACTGCAAATATTTTAAAGAATTTTTATTTATGTATTTTTGAATAAAGGAAAGTGTTATGATTATGCATGCCACAAAATCCTTTAGTACTTATAATATAATGTATTCAATAACAGTAGGTGTAGCGCTAAATGACCAGAAAACAAAAAATAGTTAATGAACGCTTGATTTGATGGTCACTTAAGATTTGTCTTAACACTTTTAATTTAGTAACCTGAAAATGAGTGAGTTTACATTATCTGCTGCATGAGGTTGACTTTCCTGCTGCCTTTGTATAGAACCAGTTTCTTAAACCAGCTGCATTTTTTTTTTTCCATTATATTGATGCACTTGGATTGGTTTGGATTTTGAGGTCAAAATATTTTCATTCTTGCTCTGAAAACGTAGCTTTTTATGATGACTGACGGCATTAATGTTACATTAATGAAGCATTTGGTATTTAGAGTGGGAAAGGACTCAGATTTCTTACTGTGTCTTTTATGTTTGGAGTAGTAGAAGTTGAATAACTTCTCCTAAGCAACATGTTTGTCGCCGTCCTATCTGAATCCCATTTTGATGTAAGCTGTGTCAGAACTGTATCTCACAGAAGATGCATTGTGGGTCTACATCAGTCCTTTATTCAAGTGGAGGAGGAGAGTGAAGTTTGTGTCTCAGAGAATGGGCAAAGCTTCTTCAGATGCCAGATCATGCTGTAGAACAGAGATCCTGTTCCCTCCAAATAAGTCTGTCTGTCACGTAGTAGGACATAAAGATGTGTTTGAGTCGTAGTGTGATAGAACAATAGTATTTCTGCCTTAAGTTGTCTCTAGAGATAAGACATGGGAGCTATGGATAGTGACATTTGGAACCCTTGGCAAGCAGAGTTCTAACAGAAGAGCCTGGCCTGTATTACACTGTTTTTCAGTAATCTCGCATTTTTAGATCTCCTGTCAACTCCACATGTACATGTCCTTTCTCACATAAATATTCTAAAGACAATACTTGGAGGTCAGTTAAGCTTTCTATGTGTTTTTCTGAGAGATGATGCTTGGTGGATATCTCTTACAAATTATATGTGGAGTGACTTAACTGACTGGAGAAAAATCAGAAACATTATGGACACAGTTTTTCATGCAGAGGGTGATGAAGCACTGGAACAGGTTGCCCAAGGAGGTTGTGGACGCCCCATCCCTGGAGGCATTCAATGCCAGGCTGGATGTGGCTCTGGGCAGCCTGGTCTGGTGGTTGGCGACCCTGCCCATGGCAGGAAGGTTGAAACTAGATGTTCTTTGAGGTCCTTTTCAACCCAGGCCATTCTGTGTGGGTTGCAGATGTTCACAAAGAAAAGTAAGAATTAGAATATTTCATTGAATGTAGAAACGTGCATTTTGGGAAGACTTTTCTTAGATTATCTCAACTGAATCACTATCTTCACCCACAATCAAAGAGGCATAGCAAGTTTCAAGTTAAAGAAAAAAAAAATCTATTGTACAGGACATAGTTTGTCTGCTTGCTGTTTCCTTCATAGAGTGTACCCTAAATTGTGGAAAAGTATGCAAAACACTGCTGGGATACTTCTGAAAACTTGGGAGCTTGTTATATTGCTGATAAGTTTTGGTAATTCACAGCCTTCTGGTGGTTTGATGATGTAGTAGTATTTCCCATTCTCTCTGCTTCATGTTAGATAGTAACCCGTCAGGGGCAGGAGTTAGATTTTTATTTTGTTATTACACCATTAAATACAGTAAGTCTGTGTTTGTGATTACAGATCAATTCTCATAATTGTGATAAACCAAACAATACAGATATCAAATAGTGATAATCAATTACTAAACATTGCCAAGATCTGTTAGCATAGCGAACGGCTGTTTGCTAGTGGTTGATGAAGTCTGCGACACTCTGAAATGTTATCATGGACTTTTGATGACTGCAGGTACTTATACTACCATTTCACTGATACTGTTGCTCTTTGGTTACTGTGAACATTAGAGTTTCATCATATTTTTGCTGGTACTTGGTTTGTTGACCAACAAGTAAGATATTCCAAAGAGTTGTCTGTTAACTTAGTAACAACTGCTTTAAGTGTTATGAAAGTGACTTTGTGTAGAAATGTACTTACTGTGTTCACGTTCAAAATTACATTTCTTAAAACTTTCTGCCACAG
Seq C2 exon
CGTTTTACCAATGAGGATCATTTGGCTGTCCATAAACATAAACATGAGATGACACTGAAATTTGGTCCGGCTCGTAATGATAGTGTCATTGTGGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009287:ENSGALT00000015107:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.037 A=NA C2=0.636
Domain overlap (PFAM):
C1:
PF138941=zf-C2H2_4=PU(34.6=56.2)
A:
NA
C2:
PF138941=zf-C2H2_4=PD(57.7=45.5)
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:
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]