GgaINT0050595 @ galGal3
Intron Retention
Gene
ENSGALG00000012509 | F1NCH5_CHICK
Description
NA
Coordinates
chr7:36936473-36940062:-
Coord C1 exon
chr7:36939979-36940062
Coord A exon
chr7:36936625-36939978
Coord C2 exon
chr7:36936473-36936624
Length
3354 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
TTTTTCTTCTTTCCCCCAAGGAC
3' ss Score
10.4
Exon sequences
Seq C1 exon
TTTGTAATAGTTGTTGTGGACAGCACAGACAGAGAGAGAATTTCGGTGACTAAAGAAGAACTGTATAAGATGTTAGCACATGAG
Seq A exon
GTGAGTAGACCCTGTATCTTCTTTGATGTAATGTTTGTGCCTAAGATGTGGATCAGGAAACTGGTCTGTGAGAGCTTTGTTTAAGAATGCCATTTAAGCCTGATGGTGGGAGACAGACCAGAAAGGACACATGGCTCAGTTGAAACCCAGGGCTAATGTTAACTGCCTTGTTCCTGTCTGTGGGCAGTGCTGTCAGACCTGTCTGGTTCCTGCTAGAGGCTCTGTCTTTCGTGAAACTCCCAATACATCTGTGGGAGATCAGTGATTTCATATTAATTTATAAAAGTAACTTTTCAGCTTCTGAGCGCTTCATCAAAACAGAAGTTGGCACTTAGAAATGATGTATATGTTTTTCAGCATAAGAAGACCTGCAGTAGTTGAAGAAGGGTTATTATGCTGTGCCTTTAGTCTTGTTCTTTGTGGCTGGAAGCTTAAGTTGTTAACTCTTCAAAGGAAACCTTTGCAGTAAGAACCAAACAGCAATGTGATGATTGCAGAAATGCAAAATGCGTGACGTAAACTGTTAAAATTCAGGCTGGATGTGGCTCTGGACAGCCTGGTCTGGTGGTTGGCAACCCTGCCCACAGCAGGGGGGTTGAAAATGGATGATCCTTGAGGCCCTTTTCAACCCAGGCCATTCTGTGATGCTATGAAAAGGTGTGAGAAAGCTGTAGTAGTTATTCTACATCAGCTTGAACTTAGAGAATGACTATGATTTGCTAACTTGTAAAGACTCTCTTTCAAATTGAGTGCTGTGTTAGGTCTAAAATGGAACTGTTTCTGATTCGTAAGTGCTCTTGTACTGTATAAGTCAAGGAGCAGTGCAGTGTAACGTAAGTTATCTACCCACAAAGTGCTTCAGGACCAGAGGCTGGAGTTTTACTGAGTATGTGCTTATATAAGCTTAACTTCTGCCGTGATATGTAAGAGCAGCAAATTTAATGCAAATGGGATCTGTTTGTATGAGCTGACACTGAGGACACTGAGCTTCCAAACCTAAAAATGTCAGAATACAAAGATGTGCATAGAATTGATGGCATTGTATCCCAAAATATTCCACCTATATTTAAACTATCACCACTGCTCAGCAGGTGACTGCAGAAAGGCCCAAGACTGCATCTATATATCTATGTATATCTCTGTATATGAATACATATACTTCCTTTGAATGATCATGGTAGTCTAAAGCACTAGAGAAACAACCAAGACCTTTCTTCAGTGTCTCGATGTTTTTTTTCTTCTTTTGTATTTAAATTCAAATAGTATTTAACATATCACTGAGTTTGTTTCTTAGGAAGGTTGGTGTAATTAGCTGAGAGCCAGAGGACAGGTAATTATTTTCCTGAGAAGTAGGTGTCCTCCCAGAATGTTGTTGTTTTTATGCCATGACCTTGGGGTTTTAGGCAGCTCTTTTGCAGAACTTTAAACTGTAAACCTCAGCCAGCGTCCAGCTGATGTGCAGGTTCTAGATAATCTAAACTGCAGCTGCTTCTTCCTCCATGCTCAGTGGCAGCTCAGTAGTCCTTTTTAAGTTCACCTTCTTGAAACAGACCATACTTTGTCTGAAACTTTGCATTCTGTGATGCTCAAAAGGGGTAAATTCTACAAAAGCAACCCTGACTCAAGAGCGAGTCTCCCAGGAAAGCTGGGATGGCAGGGAAGAAGGTGGGCCGGTCTGTCTCATCTGTGGTGTTGTGTAAACTTGTATAGGCTTGGCTGCTGCAAGGTCCTGCTGCTGTGGGTTTCGTTTCTCTCCTTCAGGGCTATCCTTGTGCTAGCAGTGTGGGTCTGTGGCTGGCTGTGGGGTTTTGGTTTCGCTAGCTCAGGTCACTGCGTGGTGACTCCTCAGCCAGCTGGGCGAAGCCTGTTGTGTAAGCAGAGGGCAGCAGCAGTCCCAGACCTGCACCTTCTGCCTGCCTGGTTGTGGCAGAGCACTGCATGCAGCACAGGGACCGTTGCCATCAAGTCTGCTGCTGTCATCATTAGAATTTCTCAGCTGTACTATTTAGTCTGTTGCAGTAGATAAACAAAATCTGCATCTTCTGTTTCATAATCTGCAAATGAGGGTGCGGAAGCTGTTAATGAACTGTATTTGAAATGAAGGAAGTTTGAAACTCCAAGCAATATGAATGCCCTTGCTTCATGCTGGGAGGCTGCTTCTACACCCAGAGCACACATCTAACAGGAGGTGTGCCTGTTGTCCTGCAGCAGGTTGTTGTCACTATATTCTGCTGACCCTGTAGGTGCTACGGTACTTGAACAATTATTCATATAACCTGAAATGGAAATCAAATACGTACATAGAATAGATGTTCCTTGCAGTCTTTGAAAAGTTTTCATTTTTGCTGACTAGTTCAGTTGGATTTTCTTGCTAAGGTAAAATTGACTTGCCCAGATCAGTTCCAGCTATTTTCTGAACCAGAGGATCTCATGGGAATTAATGTTACTGCTTGTAAAAGTTAGTGTGCCTTGTAGCCATCTAAGTGAATGGCTTTCTGGGAAGACCTCCTTACTTTCAGAGGGCACGTTTTCAATAGTATTTGTCTGTACTAATGTAATCCAAAGCAGCTTGAGATAAAGCAAACTTGAGTTGCCTAGAGTTGCTCTTCTCTAAATGGTTAGAACCGATGTTTTGAATATTTTAGAGCCCTATCAAGGCAATTATTGTAGTGTGCTTGTTCATTTAGATGCCTGTGCTTTGATTCTAAAGTAGTGTAAATGGTGATGTTCCACAAACGATGAACGTCTTATAAATGAAACGTTACTGCGGCTTGCTTTACACTGTCGGGGCAGTCTCAGTGCTGCTTAATAGGTGGGATTTCTGTGGCAGAGGATGGCTGGGCAAGGCTTTTCCAGTGCTGGAGAACTACTGGAGTGTTGGTTCTGTGTAAGAACTATGGCACAAACTGCTGATTTGGCACTAAAATCAATCTCATGGTGTGCATGTATGTGAAAATGTGGTATGTGTCAAAGCATGGTGTGTGTAAAAGCCAGGCACAGGGAGGGAGAGCAGCTGCTTCAGATATACAGGCTGGAGTGCTCTGTAAGGGAGGGCTAAAGCAGAAGACCTTGACTCTGAAACAGGTGGGTGATGTAACTGCACGTACTGTGCTCAGGACAGATGCAGGGTGCCCTGATCCTCATGGAGGACAACAGAACGGCGTTGGTAGTTTTAGGCAAAAATTGGACATCTGATCAACAAGATCAAAATATTTTCTTTTCAGAAGTTAAATGCTGATGAGCCTGCAGCACTTATGAGTTTTTTTGCTTGGGCTTACAGCTGACTAGTTTGCTGTCACATCTTTTGTCTCCAAAGGCAGATTTGTGATAGTCTTTTTTCTTCTTTCCCCCAAG
Seq C2 exon
GACTTGAAGAAAGCAGGTTTGCTGATCTTTGCTAACAAGCAAGATGTTAAAGAGTGTATGACGGTGGCTGAAATCTCTCAGTTTCTGAAGCTGACTTCAATTAAGGATCACCAGTGGCACATTCAGGCGTGCTGTGCTCTAACCGGAGAGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012509:ENSGALT00000020434:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0002516=Arf=FE(16.0=100)
A:
NA
C2:
PF0002516=Arf=FE(29.6=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:
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]