GgaINT0050294 @ galGal3
Intron Retention
Gene
ENSGALG00000023419 | F1NZJ3_CHICK
Description
NA
Coordinates
chr7:17386111-17387758:-
Coord C1 exon
chr7:17387350-17387758
Coord A exon
chr7:17387052-17387349
Coord C2 exon
chr7:17386111-17387051
Length
298 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGG
5' ss Score
10.17
3' ss Seq
TCTCCGTGTTTCTTTCCCAGTGA
3' ss Score
10.25
Exon sequences
Seq C1 exon
ATGGCCATGAGTTCGTATATGGTGAACTCTAAGTATGTGGATCCCAAATTTCCTCCTTGCGAGGAATATTTGCAGAGCAGCTACCTAGGCGAGCAGGGGGCCGAGTATTACGGGGCCTCGCAGGGCTCCGATTTCCAGCACCAGGGGCTCTACCCACGGTCAAACTACAGCGAGCAGCCCTTTGGCTGCGCCGGTGCCCAGGGCTCCGCCGTGCAGCCGCGGGGTCACGGACAGGAGCAGTCCGCCCCTCCGAGCCACTTCCCCGGCCAAGCCGAGCATTGTCCTCCGCCTCCAATGTCCAACTCCCGAGCCTGCGGCCAGCAGCCAGCCCTCAAAGCCCCCCACGGGTCAGCAGTTAAGCAGCCAGCAGTAGTTTATCCCTGGATGAAGAAAGTCCATGTTAACTCGG
Seq A exon
GTAAGGATCCTCTTCTTACTTTGCTCTTCTACCCCGCTCCCGCGTGTGTCCTCAGGGATGCTCGCTCGAGCCCTGGCGAGGCTTTAAGGCGAGGCGGCCAATTACACTCGTCGTAAATTTTTATTGCCGAGGAAATAGGCCGTCGGCGTGCGGGGCTCTTCCGCGCAGGAACCGCGGTAGGAGCCGGCCCCGCGGAACGGCCGCGCCGGGCACCGCCGGAGCGCTCCTGGGGCCGCGTGGGAAGGCGAGGCGGAAAGTCCCCCTTCGGTCTGTAAAGTTCTCCGTGTTTCTTTCCCAG
Seq C2 exon
TGAACCCCAATTACAGCGGAGGGGAACCTAAGCGCTCCCGAACAGCTTACACCAGGCAGCAAGTCCTAGAACTGGAAAAAGAATTTCATTTTAACAGGTACCTGACCCGGCGCCGCCGTATCGAGATAGCGCACACTTTGTGTCTCTCTGAGCGCCAGATCAAGATCTGGTTTCAGAACAGAAGAATGAAGTGGAAAAAAGACCACAAACTGCCCAACACTAAGGGCAGGTCTTCCTCCTCCGCTTCTAACCCCCACTTACAGACTGTTCCCAAGGACCATCAGACTGACTTGACAACTTTATAGAAGAGGTGAAATTTTCCATTTCATCCTTCGATTCTGACCAGTACTGTACATAAGTGACACTATCCAAGCAGAACCTGCGTGTAGCAGCCAAGGACTCGAGAAACTGCCATCTCTCCGTAAGGTACTGTGGTACAAAGGAGACTGAATGACGCTACTCCGGACTTTATTTTATTTGCCTCTCGCTAGCACAGAAAGAAAGGGGGGAAAAAAAGCATCATACAGGCAGTAGGAATTGGGAAAGTCTTAAACGAGACCTTCTGTCCATAAAAAGTAATAAATCATTGAAAATGAAACTGTCCTGTGTTTCAGTTTGGGATTTGAAAGTGAAGGTTTGATGCTTTATTCTGGGATTTTATTATTATTATTTTGCTTTTAATTGTCTTTTTATCCCGCACAGCGAGTGTGATGCTTTTGGGGCAAGTCGAGGACAGGAAATTTATGGCACGGTCCTTTATTTGAACACAAAGCCTCGCGTTTGTGAACTTTTTTGTGCTGCTTTACCTTTACTTGGTGTAATGAAAATACTCACTCATTTCCATAACGTCTCAGAAGATGTGCATAGGAATTAAGTGAAAACGGGTTATTTTGTGTCCTGATGGTGTTAGCGTATTTATTTATTTGTTATGTAGAAGAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023419:ENSGALT00000038691:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.489 A=NA C2=0.545
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0004624=Homeobox=WD(100=55.9)
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:
CGGTCAAACTACAGCGAGCAG
R:
CTGGTGTAAGCTGTTCGGGAG
Band lengths:
308-606
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]