GgaINT0036720 @ galGal3
Intron Retention
Gene
ENSGALG00000004273 | RGPS1_CHICK
Description
NA
Coordinates
chr8:6618202-6619944:-
Coord C1 exon
chr8:6619867-6619944
Coord A exon
chr8:6618308-6619866
Coord C2 exon
chr8:6618202-6618307
Length
1559 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAA
5' ss Score
7.09
3' ss Seq
TTTTCACATGCTCCTTTCAGCTC
3' ss Score
8.4
Exon sequences
Seq C1 exon
GAACAGGTTGTACCATTCTCTCGGTCCGGGGACAAGAGTGTCACGAAATGGCTATCGAGGCCACATGAAGGCCAGCAG
Seq A exon
GTACAATCCCCACTGCACACAGAGGTGTCAAACTTTCCCTCTGGTGTTGGTGATTTGGTTTGGTTTAATAATTAAGTGGTGTTTTCTGATGTTCTCTTTTTAACTTACACGTCCAAATAAATAAAGGTAAAGACCTTTTTTCTTCAGACTTAAAGCTTTCTACTTCTGTGAGTTAATCTGTATCATCATAAGGGCTTTTGTTCATTCTGGTCTGCAAATCCCAATTCTGAACCACTGTGTCTCTGTATCCATGCTTAAAGGTATTTTACCATTGGTAGCTTTTTAACTGCGTGCCACTGTGTAGTACTGTTGGTAGTTCTGCAGACAGTGAAGTTCCTTCTTGTGCTAATGGCTATAGCACTCAAAATGTTTTCTTTGTTAGTGGTTATTTATTGAACTCCTTTTCCCCAAGACAAGTGAGATGGTTAAACTGAGTAATACATGAAATTTGGCCCCAATTCTGTATAATATATAGTGTTCTTTGAAAGCTGATATGCTAATATGACTGATTCTTCTGAGTAATTAAACATTGTCTGCAGCTGTGTGGCACTGTAATTGGGAAAGAAATGGCAGATAACTATGCATTATTTCATGTTAAGAAGCAAGCATTGTCTCACTGAGTTAAACTCATGTTCCCATTGATGTCCAAAATTGTCTCCACATCCTCATCCTCAGTAGGTGCTGCAATGAAAAGGCTTGCTGGATTTCCAGTTCACTTTGAATAGGTACAAGTGTAGGATGGATAAAGCAGCAAATGCTGGCTTACTTCAAAACAAGTTTCAGACACTGCGTAACTTCTTGGCTTTTCCAGAAAGCTGCTGGGTTCAGCATTGAGTTGTATGCTCTGACTGACATTTACTGAAATGATTCCTGTTGTGAATTTTTCTGATAGAAAATGTCTTATGCTCCAGTCAGCTTCGTAACTGTAATAAAACTAAGTTTTATTTTTTCAGTGCTGTAGCTGGCATTTGTTTTTGCCCTTTGCTCCTACATCCTATGTGTGTTAGATCGGGATCAGGAGCACACCAGATGCATTAAAACACCTTAAAGCTGTGGTTTGGGTTTCTGCTCTTTATTACTGCTCCCGCTCACTGTTCTTGCTCTTGGATATTTTTAAGATTATGCATGTTTGAGCTTTTGCTTTGTTTTCTGATGTGCTAATGATTCCAGTGTTTCTAACAAAAACAACAGAAAATTCACAGTCTTTCTTGCAAGGACTGAAGGAGGTGTTTTAACACAGAAAGCAACAGTATTCCAAATGTTTGCCAGTTAAAATCAATTGCTCTTGATTTTGAGTTGTTCTGGGCTTTAATTCTTTCTTTAATTAAAGATTACCTGCTTGGCTAATTTTTCAGATCACTTTTGCTTGTGAGTGTGAATTCCACTGCAGCAATTCCTCGTAACAGCCAAAGTCCTTTTCCACAATGAAGTCTAATAAATTAGAAACTGGCAATTATAAATTAAAATACAGATGTTTGCAGTAGTTTGAGGTAATGATTGGAGAACTTCACTAGGAAAAATATATTCTTTTCACATACTTTTTCACATGCTCCTTTCAG
Seq C2 exon
CTCTCTAGAATCTGAAGATTTGGCCGTTCATTTGTATCCAGGAGCAGTTACTATTCAAGGCGTTCTCAGAAGGAAGACTTTGTTGAAAGAAGGCAAAAAACCCACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004273:ENSGALT00000006794:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.481 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0016924=PH=PU(17.0=52.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]