GgaINT0050769 @ galGal3
Intron Retention
Gene
ENSGALG00000009589 | Q9YI58_CHICK
Description
NA
Coordinates
chr7:19662327-19665725:-
Coord C1 exon
chr7:19665636-19665725
Coord A exon
chr7:19663828-19665635
Coord C2 exon
chr7:19662327-19663827
Length
1808 bp
Sequences
Splice sites
5' ss Seq
AGGGTATGA
5' ss Score
6.84
3' ss Seq
CTCAATTTTAAATTCTAAAGGTG
3' ss Score
4.74
Exon sequences
Seq C1 exon
CCGGAGCACACAAATGTATGCTTTTGGTATATTCCACCAAGTCTCAGAGGCATGCCAGACTGTGATGAGAGACGAGAAAAGCTGCACAGG
Seq A exon
GTATGAGGCTTATGTTAAATGCAAATGTGTAGTCTGCTATTTCAACCCAAAGTATTCTTTTTATTAAAAATAATACATCTCTGTGTTGACAAGTTCCAGATACTAGGGCAAACATTCTCCTGTTTCTTGTTAGGGCTTTGATATTTGTTTACCTTTATCTCTAGCTAGAGCTAAAGTCACGTTTTCCCTGTGGAACAAAATACAGAATACAATCAGGCTTTATTTATTTGTTTCCTTTTCCTTCTGTGGTCCCAGAAGTGTACAAGAGTACTTAAAAAGTAGCTAGATATGGAAGACATCCCCACCTTGTTTGAACAAGGCGGTATTTCAGAAAGAGAAACTGAAGGGTAACTATTTGAAGGTTCTGGGGCAGATACAGCACATGGAAACATGCAAGTCTTTTCTCAGATCTTTATTTTGGTTTTAGGTATTCTTAGTCACAGGTGATTTTCCACTGTTTGATTACTGCATTTCAGTGAAAATGAATATGGTTTGGAAGACTTTGGGGTAGTATTTTTGAAGAAATGGTAGAGGGAAATGAAGGTATTGTAGAGGAACCACCAGAGAATTCTCCATTACTCAGGAACTGAGGGAAGTGAGAAAAAAATGTAGTAGCATTTTAGACAAATAGAAGTGGAATGAAGTAAATTGAGGAGACAACAGAATTATTTTATAGTTGTAAAAAATGAATTGCATTTTTTATGTATAGAAAGGAAGAAAAATGGACAAAGTTGGGAGGTTTTGTGAAGGATTTTTTTGTTTTCATCTCACCCCAGAAAGAAAACAGATATTCCTTGGACAACCTAGTGTTAGGGAGAATGCCTAAAGTGAGAGGGAAAAAAAAAAAAAAAGGAGTTAGATAAGATTGGGAATAAGGATGAAATATTTTATTTGACCTTGTTAATTGTTAAAGGCCATCATAAAGCATCCTACAAAACAGTTACGAACCAGAGCTCTGACCTTGGCTGGCAGACAGTAGAGCAGGAGAAAAGTCTGGATGGCATAACTGGACTCACCTAATACTGCATATTAAGACTGTTGGAACAGTATTTCTTATAAATTAAAGTGAGGAAGTGTAACAGAGGTAAATGCACAGTACTGCAAAACTGCTGGAAGGTTTCCATGGCTTATGCTAGCAGAAAATATTCCTTACAACAAAGATCTTGTTGAAAAATTTCCGCTGTCCCCTGCCTTGTCCCTTTAGCAAGTTGACTTTGAGAATACATATATTTTCATGAAAAGCATCCATGGCCCTCAAAAAGTTGATTCTGGAGTGAGTTTTCAAACAAAAAAAACAACAACAAAAGAAATACTCCCTCGTCCCCAACATTTCCTGACATCAAAATTATGCATATCTCTTTTATCCAAAGGCTGCAGTAGAACTGTGCACATTCAGTACTTCTCACTCAAATACTCAGGATATAAGAATAACGATAATTAATCAGCACATACAAATTATGTACATTAGATATATTAAAATGTTATGTTCTGAATATACTAGGATGCTGCTAGTTTCTCAATTAAAAAGATTTCTTAAAAGATCAATATTACCATTGCCAATTTTACTTCAGATATCCAATCTCTGAAGCTTTCCAGCTTTTTCTCTTACAGATCTTATACTGCTTTTCTAAACTGTCCATTTCATTCCTTTTTGTTTTCCCTAAATTTAGACAGCTTGTGATATTCAAAGAAAAAATAAAAATTCTCAAAATCTCTTTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTGTCCCTCTCTCTCTTTGTGTCCCTCCTTCTCTCCCTCAATTTTAAATTCTAAAG
Seq C2 exon
GTGGCACCGAAAATCAAAGCCCTGATGATGGAGTCAGGTACTACCATGGTTGGATATCAGCCTCAGGGCGATAAAGTCAACTTCTTCCGAATGGTCATCTCAAACCCAGCAGCAACTAAGTCTGACATAGACTTCCTCATTGAGGAAATAGAGAGATTGGGGCAGGAGCTGTAGTACAATGGTTGAGTTATTCATTTCTCTAATTCACTGTTTTCCAGTACTGGTTATTTTTTTAACCCAGTTCTGCAGAACATGTTTTAAGGAAATTCTCTTTCTGTAAGTTCCAATCTCCTAAGACATCCTTAAGCAGTGACAAAACTCATAGGCTATTGAAATATATGTGTACTGGTAGATCATTTTACTGAGGGAAAATGTATTATCTTGAAGTTGAAGTACTGTTGACTCTTAGATTGGTCTTGTTTATTGTCAGCAGGAAATTAGTAAGTGTGAAAATAGAAAATTAAGAACTCTGCACAGTATATATGTACAGTATAAATATATATCTATAATTATATATATATACATATATATATATATATAAATATATAAAGAGGTTATGAACTTAGATCTAAGCCACAGCATGTTTTCCACTTTAAGAAAATTAACTTTTCCTTCAACAACTGATGTGGATAATGTGCTACAGATTTTCCTGCCAGGTAAAAATAGACATATAGAAACATTTCTAAAATGTAGATTCTTAGGAGCTAAAGAAAATGTATAACAGTATTGAATCTTGTTGTTGGTGCTTCTGTCACATACGAAACAGCAATCTCTAACAGCACCTTCGAGTAAAATAGTTGTATTTTCCCTTTAGTGTCACATCGGGGATAATAGTAGCAGAGTCATTGTAACAGGTATATTATTGCTGTATTTTTAGAGGTTAATTTGTGTAGATTGTGTATATTATTGTTAAATGACTTTGTGTAAAAGGATTTAAATGTAATAGTTTTACAGCAAGGTAATTGTTGAATTGTAGGTATACAAAATATTTGCTTATTTATATGCAGAGATTTACCATGCTGAAGAGTTGTCTTGTATTTTCTTCCATTTGTAATGTATCCTATTTATATATTATTGAAGTTCTAAATAATGTTTATGGTATTTTAGTGTATTTGTGAGCCAAAGAAAAGATACAAAAATACTAGCTAACACTTTCATTTAAATCCTAGTGCCCTTAAAATAATAATTTACAGATAATTTTACTGATTATAAGGAGTTCTAACATTGTACATAGGCTGTCAAATAATGAAATCCCCTTTATCTATTAGAAATTTCAGTTTATTAAATGTAATGTCTGACTGTCTGTTCAGTGTTTTGAATGCTTTTCTAGTGAATATAGGTTGCTAACCAAGGCCCCTGTTTTTGAGTTGAATGTCAGGACTAATCTCTATGACCATTTTAACTAAATTCTGTGGGAAGATTCCTGAAGGTCTGAAGAATTTATGTGGGAGTCTAAATGAGCATCATTCTTTCAGTGAAATTAGATGCATTGTATGTTTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009589:ENSGALT00000015628:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0028214=Pyridoxal_deC=PD(2.7=33.3)
A:
NA
C2:
NO
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:
AGACGAGAAAAGCTGCACAGG
R:
AGCCTATGAGTTTTGTCACTGCT
Band lengths:
349-2157
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]