GgaINT0050438 @ galGal3
Intron Retention
Description
NA
Coordinates
chr7:20139019-20140198:-
Coord C1 exon
chr7:20140063-20140198
Coord A exon
chr7:20139115-20140062
Coord C2 exon
chr7:20139019-20139114
Length
948 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
ATGTATCTTTTCTTTAATAGGGA
3' ss Score
9.44
Exon sequences
Seq C1 exon
AGCTTATGAAACTTCGAAAATGTATCGTGATCTGAAGCTGAGAAGTGCATTGATTCAGAACAAGCAACTGAGGCTGTTGCCACAAGAACAAATATATGATAAAATCAATGGAGTGTGGAATTTATCAAGTGACCAG
Seq A exon
GTAAAGTGAAAAATGAGACTGTGTTGACTGCAGTGAAGTTAAAATGTTTTGGGTTTCATCTAGCAATTGTACTACTATAGTTTTGTAACCTCAGAGGCGATACCCTAAATTCAGCTCATTAGAAGAGCTGACTTCATATATTTACCATTTAGCACAACAAAGTTCTCAGCAGACCAAAGTCTACATGACTCAGCTAATGTGCAAGGAACTAGATATGCACCTGTTAATAAAAGATATTTGTGAGTGTAAAGCTCTGTATCATCCTGAAAGGCAATCTTGCTGTTTCCAAAGTGCTCTGCTGCATGTTTGTATGTTTACTTGCAGCCTTGACTACTTTATAAGACTATAGTGTCTTTTGATTACTGGAAATTGAAAATATTGAAATGGAAATCTATGTCTTAAAATTTGCAGTAATAAAGAATTCAAGGAGAATATTGAAAATATTTCCATTATTATACATGGATGTACTTAGAAGTATTAACCAGAGCTGTGAAACAAAATGGGAATTGTTATTTTTGTCTGTGTAGCTTTAGTCCAGAATGGAAATGGGATTCATCCTGACAAGCTAAGAAGTTCTTTCCCCTTCGTTCCCTTGGCACACATCTACACAATTGCCTAAGTTTAACCCACATGCCATTATACTTACTCTGTATGCCAATTCCAGATCTGTACAGTTAAGAACACTCTCAGTAGGTCTGCCATGCTGTGATTTGATACTGCTTTGCTGCAGCAATAGGAACTCCCAAGTGATTTTCAACTTGGGTGTTGTATCCTTTAAAGATAGGATCTTGCTTCCTAGCAGTCATTAATAGCATTTTCACTGGTTTCTGTGGGAAAGGATCAGGCCTATATCATACTAGTGATAAACAGGTATCAGTAATCATCATGTCAAGGGGGAGAAAGGCTCAGTATTTCAAAGCAGCTCTTAATGTATCTTTTCTTTAATAG
Seq C2 exon
GGAAATCTGGGAACGTTTTTTATTACTAATGTGAGAGTAGTTTGGCATGCAAATATGAATGACAGCTTTAATGTCAGCATACCATATCTACAAATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009846:ENSGALT00000016007:6
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:
PF072896=DUF1448=FE(13.4=100)
A:
NA
C2:
PF072896=DUF1448=FE(9.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTTATGAAACTTCGAAAATGTATCG
R:
ATATGGTATGCTGACATTAAAGCTGT
Band lengths:
222-1170
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]