GgaINT0044554 @ galGal3
Intron Retention
Gene
ENSGALG00000003526 | Q5ZKY5_CHICK
Description
NA
Coordinates
chr6:10470094-10471694:-
Coord C1 exon
chr6:10471522-10471694
Coord A exon
chr6:10470223-10471521
Coord C2 exon
chr6:10470094-10470222
Length
1299 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
GTTTTCTCCTTTCTTTCCAGGAA
3' ss Score
12.46
Exon sequences
Seq C1 exon
ATTGACTTGATGCCCCATGACCTCATTACGCAGCTCTTGAGAGTGTTGGCCATAGAAACGAAACAGGAAAAGGCCATTATTGGTGCAGATCCCACAGAGCTCACTCTCAGTGGTCTGGAAGCATTTTCCTTTGACTACATTGTTAAGTGGCCTCTGTCCCTGATTATAAACAG
Seq A exon
GTAAGGTATCCATCCACCAAAAAAAAACAAAAGGCAGAAGCTTTTGTATAGGCTTACAACACATTTCCAAACAGCAGAATGCTGCGTAGTCTGTCTTCAAGTGACACTAGAAGTTGTTGAAAAGTAGTAAATGCTTTGGGGTTATTGATTTCCACTTGCTCCACTGGTAGACTAGGGCTTGTCTCTTCAGTACAGTCCTACCAGACCATGCCTAAGATATGCATAGAAAGTTGATTTTAAGTGATGGAAAGACATGACCAGTCCCCCAGCTTTCATTTGTCCATAGCTTTTTGAAGGATCTCTCTGAGATTTTTTTATTTGAAAGTGAACTCTCATTTAAGAGTTTCCCTATTTGCAGTCAAACATTTCTCAGATGTGGAAGTGCAAAAAAGCTTTCTGGTAGCACTGGTTGCAAACTAGAAGGATGCTACTGGCTGTTGCTAGAATTACTGCAGCAGGCCATTTTGCATTAAATCGAGTTAGGATAAACAGAGTGCTTTCTTTTTCTGTAGTGACTTGCTTCTGCATGGAAACAGGGCACTGGCAGACTGTGAGCCAGGGAAACGGGGCAGGCAGTGTTAGGTGCTAAATGCCAGCAGTATCCCCTCACTTCTGTGAAATAATCAATTGACACGGTGGAACTTCCGTAATGACACAGTGTACCTGAAATTTTGTCTCTTTCTTTCAAACTGGGTATATTAACTTTGATGGTAACTATGGAAGTGAAAATACTAAGTGGTACAGTTTCACGAACTGTATTGGCTGGAGCTCTGTAGACGCCTACACCGAAGTGTCTGAGCACAGACCTGCACCCAGTCCCTGAGGCTATAAATAAGCATCCCCATCTGCTTCTGACAGTGCGTTGCAGGCAGGGGGATGCTGCCTATAGCTTGGTTGCAGTTTTTCTTAATCTTTTTGGAGAATCCTGGTGAATTGTTTTGGCAGTCGTGGCAGCCTTGTTGCAGCAGGGACACAACTGCAGGCTTTCAGACCTCTGTCCAAGCTTGTATGCGAGTGATCTTTCTGCAGGTTGATCGAGGGCATCAGAGAAGGAGGCTCATGAAGTACCTGGTGGCAGGGAGTGTGAAGGAGGGACACTTCGGGAGGAATTCTTTGGGATGATAACACATGCTTTTTTTTCATCCGTTAGAATGGTTTCAGTGAAGACCCGTGTGTGTCTGAAGGCGTAAGGAGCATATTGTTTTAAGTCTCTTTGCCTCAAAGTAGCCTCAGCCTTCACGGCTTAACCTGTCAATCAGAAGAGAGCTTAATCTGAATGGTTTTCTCCTTTCTTTCCAG
Seq C2 exon
GAAAGCACTGACAAGATACCAGATGCTTTTCAGACACATGTTCTATTGCAAACATGTGGAAAGGCAGTTGTGCAATGTTTGGATCAGCAATAAGACAGCCAAGCAGTTCTCCCTACATTCAGCTAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003526:ENSGALT00000040987:12
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:
PF041308=Spc97_Spc98=FE(11.0=100)
A:
NA
C2:
PF041308=Spc97_Spc98=FE(8.3=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:
ATTGACTTGATGCCCCATGACC
R:
CATTTAGCTGAATGTAGGGAGAACTG
Band lengths:
302-1601
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]