GgaINT0099743 @ galGal3
Intron Retention
Gene
ENSGALG00000006072 | E1BXV5_CHICK
Description
NA
Coordinates
chr2:5294563-5295918:+
Coord C1 exon
chr2:5294563-5294817
Coord A exon
chr2:5294818-5295797
Coord C2 exon
chr2:5295798-5295918
Length
980 bp
Sequences
Splice sites
5' ss Seq
AAGGTTAGA
5' ss Score
6.12
3' ss Seq
TCTTTATGTTTATTTTTAAGATC
3' ss Score
9.18
Exon sequences
Seq C1 exon
ATGGCTGACTTCCTACTACCTGGTACCAACAACTTCCGTAAATTCACTCCGGAATCCTTGGCTGCTATTGAAAAGAGAATTGCTGCCAAGAAGGATCATCAAAAAAGTACCTTAGATCAAAAACCTGAGGAGAAACCACGTCCTCAGCTTGACCTAAAAGCTTTCCAGAAATTGCCAGCTCTCTATGGAAATCCTCCTCCAGAGCTCATTGGGGAACCACTGGAAGACCTTGACCCATACTACAAAGATCGCAAG
Seq A exon
GTTAGAGCCAACCAAACTGTTTAGATCTTAATTTGTTTCGTTATGTGGCTACAAAATGTTCATGTGAATGATCTATTAAATGGTCTTGTTTATACTCCTTTGGAAAAACTATAATCCCTTCCCATGTTATAATAATGTGGGAAGTTGGCACGACTGAATGACATGCTGTAATTTTCAGGAAAAAAAAAATCTTAATTTTGAATTACAGGAATTAAATATCATGAACTGCATTAGCATTTAAATCAGAAGGGAAACATCAAAAGTGAAATGGACAAAGGAAGAAAATGAGGTTTTGACTCAGATTTACCAGAAATGATGATAACTTTGGAAACTTTCTTTATTTTCATGGTTTTAAACTCTCCTCCTCTGTCTCAACAGTTGTGCTCTATGAACGCACACAATGGGTGATCATCCAAGTATAAAAATTATTATAAAACGTTTGCTGGTGAATCCTTTAAACCTACTTATTCAAGCTCCATATTCTAGTCGTGTATACTTGAAGAAAATAAAGAGGGGAGAAATGGGAAATACTCCATTAAAAATGAAGCTTATTGCTTGAGAAACTGAGAAATACTTTGTGTTAATTTCTACAGTCTTAGAGCTATAGGATCGCTATTCATATTGACAAATAACATTTAAGTCTACAACTCTTTCTTCCACCTTTGCACAGCTTGATTCAGAGGTCCAACTTACCTCAAGAGAACAGTCATAAGCAAAATTTATTTTGCGTTCATTATAAGGATTTAGGTTTAAAGAAGGAAGTTCAGGGTAAGATTTTGTTCTGCTTTGATAGTTACTGGATATTAACTCATTCATCAGTTTATGATAAAAGTGTTGCAAAATATTACGGTCTACTCACTTAAGCAAGCAAACAAAAGTTATCGTCAAAGCCTTTCATAGAAAAAGGTGTAATAAAAAATATATATATTCTCTTAAGCTTCCTGAAAGTTTTACTTTGTTTCTTTATGTTTATTTTTAAG
Seq C2 exon
ATCTTCATAGTGTTAAACAAACAGAAAACAATCTTCCGGTTCACAGCTACGCGTGCCTTATGGATCCTCAGTCCTTTCCATCCAATCCGAAGAGCAGCAATTAAAATTTCAATACATTCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006072:ENSGALT00000009797:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.176 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTGACTTCCTACTACCTGGT
R:
TGCTGCTCTTCGGATTGGATG
Band lengths:
352-1332
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]