GgaINT0125787 @ galGal3
Intron Retention
Gene
ENSGALG00000000864 | Q5ZK75_CHICK
Description
NA
Coordinates
chr17:11108101-11108938:-
Coord C1 exon
chr17:11108805-11108938
Coord A exon
chr17:11108188-11108804
Coord C2 exon
chr17:11108101-11108187
Length
617 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGA
5' ss Score
6.03
3' ss Seq
ATTACATCCTTCAATTACAGGTA
3' ss Score
9.3
Exon sequences
Seq C1 exon
TTTTTAGTGTGGACTACAATGATGAACTTGATGTTCTAGTCAGTGGCTCTGCAGACTTCACTGTGAAAGTGTGGGCCTTATCAACAGGAACGTGCCTGAATACCCTTACTGGACACACAGAATGGGTCACTAAG
Seq A exon
GTGGGAATATTGTTTTTTAATTAATCTTGGTAAATATTTGCATGAAGTTTGCAAGTTGTTCTAACTTTCTATTTTCTAATCCCAGTCTTGCCCCTAGGTGTAGAATCTGAAGAAGATCAGGAAATGTAGATATTGCAAAATAATGTTTAAACAGAAAGAAAAGCTGTAACTAAACCTTTCAAAGGATTGAAGAGATTTCTGTTCTGAAGTGGCTGGAATAATACTAGGAATCAGCATTTGTTTGAAAGATGAAATAAATGCAGTGGTTCAGAAAGAAAGCTACTTTTAAAACTATGTAGAAAATTAACGATCATGATAACCAAAATCTAGGCATAAAAAGTGCTGTGAAGTTTAGAAATGGTATTTCACTCATGAGCATTTCAGAAATTGCAATGTGCATTGAGGGCAGAATTCTGGAGAAGTACATGTGTTAGCTTGAAGTTCTCACTAGTAGGAACAAGCAAGTGTAAATAGTAGTTTCCCTTTAGGTGCTGAAAGCATCTGTATTACTTTTGACCATTTGTGTTGTGTATTCTTGTGTAACAAAATGGACAATGCAAATGAATGCTTGGTTAGTTAACAGCATCAAAATAAGTCATTACATCCTTCAATTACAG
Seq C2 exon
GTAGTTTTGCAGAAGTGCAAAGTCAAATCTCTTATGCATAGTCCTGGGGATTATATTCTTTTAAGTGCAGATAAGTATGAAATCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000864:ENSGALT00000001266:4
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:
PF0040027=WD40=PD(64.1=55.6)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTGTGGACTACAATGATGAACT
R:
TGCACTTAAAAGAATATAATCCCCAG
Band lengths:
198-815
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]