GgaINT0131668 @ galGal3
Intron Retention
Gene
ENSGALG00000002558 | ARLY1_CHICK
Description
NA
Coordinates
chr19:4918207-4919603:-
Coord C1 exon
chr19:4919541-4919603
Coord A exon
chr19:4918402-4919540
Coord C2 exon
chr19:4918207-4918401
Length
1139 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
TTAATTTTAATTACTCTCAGGGG
3' ss Score
6.79
Exon sequences
Seq C1 exon
GTTGCACCAGGTGCCAGGATTGCTGCAAACACGAGCAAAACGTCGTCCGAAATGGCAACCGAG
Seq A exon
GTGAGGCCGAACTTTGCTTTTCCTACGGGGTGCTCTCAGGGTGCTCTGACAGCTGACTGATAGCTCCACAGAGCATCCAGTCGCGTTTGTTAGGGTGCTTCAGGGTGCTTCAGGGTGCTTCTCTCTGCCTGATTTCTTTTCTCGGTATTTTTAAATGGAAAGGGAATAGCAAATGTATTTGCTGCAACATACTTATATACTGCGATAATATGCTTCTTTACTACTTATATACTGCCATATACTAAGATATATTCCAATACCTCTTCCTCATCCAAGCGCTTAGCTCCCAACACTGGCCATCAGCACCCCATCCATTCACCGCAGTGGGCTGCACTCCCAGCGAGGGGCTGCAAAACATTGCTTTTACAACTCAGTTCCTCTCCCACAGCTCCTGTTGACAAACTGCTATAAAGAGAAAAGTTAAGAGACTTGAGCACTTCGTGCCTACAGGTTTCCTCCTCTCCAGCGGCTGCCTGGGAAGGGGCTCCCGGAGCCGCCCGCTGTCCATGGTACCGGCAGTTCCGCAGCCCAGTGCTGCCATAGCTTCTTGGTGTTTGAGCATTTGGGATTTTGCTGCTGTTTCTCTTTTTTTTTTTACTAACATTTATAATACTGAATGGTCTGCACTCTAGCCATTTTGGTGTTAGCTTCAAACTCTTTGTAATTACAGGGGTGTTTTAGCAAGTGTGGCTACCTTTGGCCCATAGCTCTTGGTCAACCAAATATTTTCTTATACTCTCCCCACCTCTTACTTTTGTGTTTCAAGAGTCTATGAGGGAGTTGGTGACCTGTAGCTACGTTGAAGGATAGATCCACATAGTCCTTGTGCCATATGCACTAATATTTGTTTTCAAGACAAAATATCTCCAGCATCCTACAGGGGTAAAATATCTCAGACTCCTGAGCCAGACTGGACAGCTCAAGGCTAAATACTAGCAAAAATGGCATTTACTCCAACTCTTCAATTTTTTTTTTCAAAGCTCTTGAAGTCCAGAGGCCTTTCTGATCAGTGTTACAGCACTGCAAAGGAAGATGCGGGAGCATGCCCACAGTTTTACTTGAATGTGGCACTGAGAGATTTTTAGGAGAATATATCAATAATGCATTTGAACATGTCCTTTAATTTTAATTACTCTCAG
Seq C2 exon
GGGGATAAACTTTTGGGAGGAAGATTTGTTGGAAGCACAGATCCCATCATGGAGATTCTCAGCTCTTCTATATCCACTGAGCAGAGACTGACTGAAGTTGATATCCAGGCAAGCATGGCTTATGCCAAAGCCTTGGAGAAGGCTAGCATCCTGACTAAAACTGAGCTGGAGAAGATCCTGAGTGGCCTGGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002558:ENSGALT00000039936:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0020615=Lyase_1=PU(19.7=89.2),PF0270212=KdpD=PU(31.2=60.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACCAGGTGCCAGGATTGC
R:
CTTTTCCAGGCCACTCAGGAT
Band lengths:
254-1393
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]