GgaINT0021982 @ galGal3
Intron Retention
Gene
ENSGALG00000008294 | Q9DEX2_CHICK
Description
NA
Coordinates
chr12:19139401-19140469:+
Coord C1 exon
chr12:19139401-19139581
Coord A exon
chr12:19139582-19140215
Coord C2 exon
chr12:19140216-19140469
Length
634 bp
Sequences
Splice sites
5' ss Seq
GAGGTAATC
5' ss Score
7.05
3' ss Seq
TCTGTTCTTGTGTATTGTAGTGA
3' ss Score
8.3
Exon sequences
Seq C1 exon
CATTCGTTCTTCTGCCGACTAACAGAAGACAAGAAATCCGAAAAGTTCTTTAAGGTTTTTTACGATCGCATGAAAGTAGCACAGCAGGAAATCAAGGCTACTGTCACAGTCAACACGAGTGACTTAGGAAACAAAAAGAAAGATGAAGACTCAGACAGAGACGTTCCCAACAGAAAAAGAG
Seq A exon
GTAATCTCCAGTTGTGCCCTTTCTAAAGTGTCAGGGGAGTAAAATGCTTTTTATGAGCTTTTTGGAGCTCATTTGAACTGCTGCAATAATGCTCTGATCTCTGATCCCACAGAACAAAGTTCAGAGATCAGTGGTGCCCTGCCCTGGGATTTCAAGAACTTCATCCCTACTTCATCCATTTGTGAGATTGTGCTATTGAAATGATGAAAAGTGTTTCTGAGATGAGACTCTGCCAGCTTGTCCATCGTGACAAGCTGCCCAAATCTGATTGGTAGTAATGACCATGGACTGTGGGTTGTGGTCAGTGCCTTCTCTAACAATAAGTGGAGAAATGCTAATTGTCTTCTAGAGCAAGTCCATTTGTTATAACTCCTGCTAGTGCTAGATGTGTGTTCCCTAACCAATTAATACCAGTATTTGTAATTTTAACGTGATCCCCATAAAAGATGGGAAGGGACTGATGTGATACGCTTCTGAACTCGAGCCCCTCGCATCACACTAAACGTACTTACTGGAAAGGACTGATGACAGATAGCTCACCTGTTTCTGGAACTTCCATGGGAAATGTGTGACTGGATATTCTGGTCCTGTTTGTTTGGTTTGCCTGAGGAAGATCTGTTCTTGTGTATTGTAG
Seq C2 exon
TGAGGGAGCCCATGACCCAAATTACAGAGGAAGTCCGGGATCAGTTACTGGAGGCCTCTGCAGCTACAAGAAAGGCGTACAGCACCTACCGGAGGGAAGCTGATTCTGATGACCATTATTCAGCGGCAGAAGGCGCACAGTCAGCAGCAGACAAGAGCAAAGATGACCTGGAGATGAGTGCTGTGATCTCCATAATGCAACCCATCCTCCGCTTCTTGCAGCTGCTCTGTGAAAACCACAACCGGGATTTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008294:ENSGALT00000013505:43
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.410 A=NA C2=0.247
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF084546=RIH_assoc=PU(24.2=34.1)
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:
GCACAGCAGGAAATCAAGGCT
R:
TGCAAATCCCGGTTGTGGTTT
Band lengths:
356-990
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]