GgaINT0059819 @ galGal3
Intron Retention
Gene
ENSGALG00000006998 | Q5ZKF9_CHICK
Description
NA
Coordinates
chr5:17707480-17709671:+
Coord C1 exon
chr5:17707480-17707716
Coord A exon
chr5:17707717-17709531
Coord C2 exon
chr5:17709532-17709671
Length
1815 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGG
5' ss Score
9.68
3' ss Seq
TCCTCTCTGTCTCACTGCAGGCA
3' ss Score
11.57
Exon sequences
Seq C1 exon
AAAAATCAAAGCCATCCTCAGATGAACCTCAGCCCCACAGCAGTGCCATTGGTCCCGTCATTGGAATAATACTTTCCCTTTTTGTCATGGGAGGAATGTACTTTGTTTGCCAGCGAGTGGTGTGTCAGCGCTACGCCGGACCCAACAGCCCCTTTCCACATGAGTACGTCAGTGGCACGCCTCACGTCCCTCTAAATTTTATTGCTCCAGGAAGTTCTCAGCATGGCACTTTTACTG
Seq A exon
GTAAGGATGGTAAAAACCCTAATAAGTACCATTACATTGTGTGGATTTGAGCTTCTGCAGGTTATTGAGAGCTGACTGTTGCCTGAAGTGTAATGAAAACATCCCCTTTGGTTTAGTCCATCTCTGAGACAGATTTCCTGTTTGCTTTTGGACAGTGTTCTCTCTCTGTGTCTCAGTCCTTCATCTCTAAAGCAGCAGAATTTGTCTACCTTGCCAAGTAATCAAAACGTCCATCCAGACAACTATATGCAGATAATAAGTTGAGACTGAAGGAGTAGACTAAAGATATAAGTAAAAGCTTGGGATATTCACCTAATAGCTAACAGCTCTGAGACCTCACATAGCCATCAAAGTAAACACTTACGTGATATATCTTACAATTGTAAATTTAAAATATACTTTTAATAGAGATGGTTCATTTCTAACTACAAGGCCCTGAGAAGAGAGAATATTTATTTGTATTGTTCAGGAAGATGTGAAGTAAATGGTCGCCTGTAAACCTACCCGACAGGGCCAGAACACAACAAATCCATATTTCAGAGCACTTGGAATCTGCTTTTCCTGTCAGCTGAAATTCAAACGTTGAAAAAGATGGATGAACAGATGTGGCACTTCTTTGTATGGACAACATTTTGAGATGTGCTATTGCTTTCTTCCAGCCAGGGTCTTAAGACAGCCAGATACAACTTAGGTTCATGCTCTCTTGCATTTTAATGGCTATGGTTAGCTGTTCCTGCTTACAGTCTGTTCTTATGGTCATCAAGGCTTTGTGGTAGGAAATAAAATTTGAGGATGAAATCGTTACAGGTGAAATCTTTGCAGTGGTGTTTTAAACTGGTCTTCATATTAAGGCTTTTTTAATTAAAGGAATTATTAGTGGCTTTCATTTGTACCACTGTAGGTGCTAAACTAAGCTGTCAGTCTGGTTCCCATTCATCACTGTTATTTTTTTCTAGTCCAGCTACCGTAGATTTTCATGGCTCTGTATTGCTCTGACAAGTTACAGCAGCTGACTGTCTTACCATTGATGTTAATTCTAATGGGAGGGCGTAGGTTGAAGCATGGTGCTTCAAAAAAGTGAGTGGTCATGAACAGTGGTCACAAATAGAATCATCCTGCTTTTCTTAAGTATTTCCCAAGGCTGAAAAATTTCTGAAAGCTTCTGAGCTAAGCTCTTCCATTGGCACTGAATATTTTGACAGAAAGAATCTGAGAATATGTAGTCTGATTTAAGTGCATCTTTGAGTTAAAAAAAAAAATGGGACAATTTTGGTTTCCCCTTTTCCTGTCACCCAGGTTTCCTTCCTTTTTTCAGTTTAAAAAGTGTTGGTTTTTTTTTTTCCAATAAGAGTAATTATTTTTTTTGCTCTTGTTCATGTACTTGCAATTGAATTTCATTGGATAGAAATGAAAACTTTGGATGTCTCTGGCTTGTTTCTCTTGGGCAGTGTATAATGCTTATTTCTGCAAGTGCCTGAGTTTGTTTAGTTGGAAAATTTCTTTGTTAACAATTTGGGTGGAAAAGTTGGATCAACTGATCTGGAGATTCCTTTCTCAGCGGACTGAGAGCGCTCCTTGTGAGGAGCTGCAGAGTCACAATAGGTGGTCTGGGGGTGAGGTGTTTGCTTTACATAATATAAAATTGAAAATATGTTGTTTTTTGTAATCCTGAAGTTTTTATGTAAAAGATCATTCCAAAAGCAACAACCAGTAGAGTTACACGGATTTGCCAAGCTCTGGATTTGTTTTCTGGTTTGCATTAATAGATGAAATTGTGGTTTACCTAACCTTGGATTCCTCTCTGTCTCACTGCAG
Seq C2 exon
GCATCTCTTGTGGAAAGTCTATGATTAGCTCCATGAGCCTCATGGGAGGGAGCAGTGGTGCCCCCTTATATGACAGAAACCACGTTACTGGAGCCTCTTCTAGTAGCTCATCCAGCACTAAAGCCACTTTCTACCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006998:ENSGALT00000011330:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.138 A=NA C2=0.319
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
TCCTCAGATGAACCTCAGCCC
R:
AGTGGCTTTAGTGCTGGATGA
Band lengths:
351-2166
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]