GgaINT0015021 @ galGal3
Intron Retention
Gene
ENSGALG00000021238 | E1C495_CHICK
Description
NA
Coordinates
chr14:2258969-2260841:+
Coord C1 exon
chr14:2258969-2259203
Coord A exon
chr14:2259204-2260678
Coord C2 exon
chr14:2260679-2260841
Length
1475 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGA
5' ss Score
9.45
3' ss Seq
ACACCTTGCCTCTTTTTCAGCTT
3' ss Score
9.53
Exon sequences
Seq C1 exon
TCTAACACCAAAAACCAGAGTAGTGCTTTAAAAAAAAATGGCTTTCTTGATTTCTTTTATCTCCGATCCTGTATTAATGGGTCTGCTGTGTGCAGCAGTGCTGTTAGCTGTACTCTATTTTTCAACCGGCTCTAAAAATGCAGCGTTTAAATTGCCTCCTGGTCCAACTCCTCTTCCGATCATTGGTAACCTGCATTTGGTGGACATCAGAAGGCAAGATAAGTCACTAATGAAG
Seq A exon
GTAGGACAAAAAACCCAAACCTGGATCCTCGTGCATTTTAAAGCTGCCTGGGCTGTATCAGCGCTACTTTTTTGTCTTTTTTTAATATGAACTAAATAGTAAAGGTGTGGAAACTGCTTTATAATATTTTCTTTCTGGTCTTCTTCAAGCCAACGTCTGTGTTGGTGCAGTGTCATTTATGAGCAATCAACCGTTAAGAAAAACACCTTTGGGTAATATGAGATTTCTTCATGTAATTGTGATGATGTACATGAAGTCTGCGGCGCTTGTGGGACTTTAAATATTAATTTGACAGCTCTGGCACCCAGAAAATGTGGACAGCATTAGGAAAGAACTCGTGTGAATGGAAACCGCTTCCCTCCCTGCGTCCTAGAGAAGCAGTGGGGGAATGTCGTGATGCAGTGACCCCAAATCCAGATGTCCCATTGCAAAACCTATTCCCTCTGGATGAATGGGATGCGCGCTAAAAGCCGGATGGCAGCAGAAGGGTGGGATGGGAAGGCTGAGCTGAGGAACCAGAAGGAGAAGCCTGGAAGCTCTTCCATTGCCTTGCAATCAGAACAGTTTACCCCGCTCATGCTGGAGCTGTGTGTCGGTGTGAGGCGCAACGGGCACAGCCGGCACTGCGGATCGCTCCCTCCTCCAGTGAAGGCTCCATCGCTCCGGTGCTGGGTGAATGCAGGCGGCTGTCGGGTGTGCAGTGCTGGGCTGAGGCTGCATTGCTGCTTTGCCTAATGGGCAGTGCAGGGCTGGGGCAGCTCACCCAGCGTGCTGGGCACATGTTTGCCTTCAGACTGAGAGTTTCTGAATGACCTCTGCGTGCTCTCATTGCTTGCTCTGCTGTATCTGCAGTCACCTATATTTGACTTTAATTTGGGATTAATCCAGAAGAGTTATCCCTGCTCCTCACTCCACAGATAACACCAAAACGGGGTCTGCACTGGGCTGTGGCTGGCTGGGCACACTGCTGGGGTGCTGCTGAGTGGGTGGGGATGCACTCACTCCTCTGCACAGGCTGTGGTTGCATCATGAGGGCTGAGGCTGTGTGCATGCAGCTGGGCAGCACATGGGGCTGCCCACTGTCTTCCTTCGGCCATTGAAGACCCTTCCCTACTGCCCCCATGCTGCTCTGCAGCAGTTGTTGCTCCAGTCCCTTCATCTAGCAGCATCAGGAGCACAGGAGAGGAGCAAGAGCTGTCCTGTGTGACATCACTATTTGCACTATTCTGGTCTTTCTCTGGTTGGCCAACCTGCAGTGCCATCTGAAGTCCAATGTAACCCCAGGTGTTGCACTTATGTCTTTTCACTTTCTCCTTAACAAAGAGACCGGCTTAGCAATGCACTGACGGGGGGTGGGCAATAAACCTGAGCACCCATCCGCTCACCTGTGCAGAACATCCCATGCTCAACCCCGGGGAGTGCTGGGTGAGGGACTTTCCCCCACTGTTGACCATCACACCTTGCCTCTTTTTCAG
Seq C2 exon
CTTGCTGAAGAATACGGCCCGGTCTTCACCCTCCATTTTGGCTTCCAGAAAGTTGTGGTCCTGACTGGGTACGAAGTTGTGCGGGAGGCACTTGTGAACTACACAGAGGAGTTTGTAGACAGACCATCCATCCCAATATTTGACCAAATTCAGAATGGAAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000021238:ENSGALT00000006237:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006717=p450=PU(0.2=50.0)
A:
NA
C2:
PF0006717=p450=FE(12.5=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:
ACACCAAAAACCAGAGTAGTGCT
R:
TGGTCTGTCTACAAACTCCTCTGT
Band lengths:
357-1832
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]