GgaINT0126166 @ galGal3
Intron Retention
Gene
ENSGALG00000008586 | F1NYB1_CHICK
Description
NA
Coordinates
chr17:2276876-2278673:-
Coord C1 exon
chr17:2278563-2278673
Coord A exon
chr17:2278167-2278562
Coord C2 exon
chr17:2276876-2278166
Length
396 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
3' ss Seq
CGAAAATGGCTCTCTTCCAGGTC
3' ss Score
7.48
Exon sequences
Seq C1 exon
GCGGCAAGTACGTGCCCCGCGCCGTGCTGGTGGACCTGGAGCCCGGCACCATGGACTCGGTGCGCTCGGGGCCCTTCGGCCAAATATTCAGGCCGGACAACTTCGTATTTG
Seq A exon
GTGAGTGAGCGAGCGGGGGAGGGAGCCGGGCTGCCGCGTAACCGGCGCGGGGTGGGCAGGGCCGGGCCGGGCCGCACTGCGGGCTTCCCCGCCCCGCGCGCCCCGGGAGGGGTTTAATCCCGGCGTGGGGTCGCGGGGGGCGGCACCGGAGAGCCCCGTCCGTGGGGCTGCCGTTACCGCCTCGGGGACGGCGGGAGGAGGAGAAGGGTCGGGGTGCGGCTGGGCGAGGGCGCTTTCCGCCGAGCCGTGCCGAGTCATTGCGGAGGTGCTGCTGCGCGACCGCAGCCGATGAAATGGAGGCTTCTGTGGGGGCTCTCCGGAGCCCGATGCTCTTCAGCTCCGCTTGCGAGCGGGAAGCGGTGACCGTAATGTAATCCGAAAATGGCTCTCTTCCAG
Seq C2 exon
GTCAGAGCGGAGCAGGAAACAACTGGGCAAAGGGCCACTATACTGAAGGTGCTGAATTAGTTGATTCCGTATTAGATGTTGTGAGAAAGGAGGCAGAAAGCTGTGATTGCCTGCAGGGCTTTCAGCTCACTCACTCGCTGGGGGGTGGCACCGGCTCTGGCATGGGCACTCTGCTCATCAGCAAAATTCGCGAAGAGTACCCAGACCGGATTATGAACACCTTCAGCGTTGTGCCCTCCCCCAAAGTCTCAGACACTGTAGTAGAGCCCTACAACGCCACGCTGTCGGTGCACCAGCTCGTGGAGAACACGGATGAAACCTACTGTATTGATAACGAAGCTCTGTATGACATATGCTTCAGAACACTGAAGTTAACTACGCCAACATACGGTGATCTGAACCATTTAGTGTCAGCCACCATGAGCGGTGTCACCACCTGCCTGCGTTTCCCAGGCCAGCTTAATGCCGACCTGCGGAAGCTGGCGGTGAATATGGTTCCCTTCCCCCGCCTGCACTTTTTCATGCCTGGCTTTGCCCCCCTGACGAGCCGTGGCAGCCAGCAGTACCGCGCTCTGACCGTCCCGGAGCTCACGCAGCAGATGTTTGATGCCAAAAACATGATGGCTGCGTGCGACCCGCGGCACGGCCGCTACCTGACCGTAGCTGCTGTTTTCAGAGGCCGTATGTCCATGAAAGAGGTAGACGAGCAAATGCTGAACGTGCAGAACAAAAACAGCAGTTACTTTGTGGAATGGATCCCCAATAACGTTAAAACAGCGGTCTGTGACATTCCACCTCGTGGCCTGAAAATGTCTGCCACGTTCATTGGTAACAGCACAGCCATCCAGGAGCTGTTCAAACGCATTTCAGAGCAGTTCACGGCTATGTTCCGCCGCAAGGCTTTCCTGCACTGGTACACAGGCGAGGGCATGGACGAGATGGAATTCACAGAGGCTGAGAGCAACATGAACGACCTGGTGTCTGAGTATCAGCAGTACCAGGACGCTACTGCTGAGGAGGAGGGGGAGTTTGAGGAAGAGGCTGAGGAGGAGGCAGAGTAAGAGCTATGCAGATGACACCTGTAAATTTTGTTTAAAGCTGTATGAACTTTCATTCAAAACTTCTCTCTGCGTTGTGTTCCTTCTCCTTGTCTTCAAGTCACTTCCAATGCTGTACAGGCACCATTAAAGCATTTTTCACAGTGCACAGGCTCGTCTCCTTTGTTCCATGTGGTAAGCCTTGCGGGTGCTGTTTCCAAATGTAAGCGCGTAGGTGTGGCGGAGGTCTGGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008586:ENSGALT00000022476:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.026 A=NA C2=0.101
Domain overlap (PFAM):
C1:
PF0009120=Tubulin=FE(16.7=100)
A:
NA
C2:
PF0009120=Tubulin=PD(59.0=37.0),PF0395312=Tubulin_C=WD(100=34.7)
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:
GCCAAATATTCAGGCCGGACA
R:
GTGTTCTCCACGAGCTGGTG
Band lengths:
343-739
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]