GgaINT0036717 @ galGal3
Intron Retention
Gene
ENSGALG00000004273 | RGPS1_CHICK
Description
NA
Coordinates
chr8:6631709-6632877:-
Coord C1 exon
chr8:6632742-6632877
Coord A exon
chr8:6631861-6632741
Coord C2 exon
chr8:6631709-6631860
Length
881 bp
Sequences
Splice sites
5' ss Seq
CAAGTCAGC
5' ss Score
-0.67
3' ss Seq
TTCTTTTTCTATTTTCCCAGTTT
3' ss Score
8.21
Exon sequences
Seq C1 exon
CTTCCGAAGTTGGAGCGTCGCCACAAAGTGGACGGAAAAATGCTGCAGCTGAAGGAGCCTTGCTGCCACCAACACCCCCTTCACCTCGGAACTTGATTCCACATGGGCATAGGAAGTGTCACAGCCTGGGATACAA
Seq A exon
GTCAGCATTTTATTTAACCTGAAAATCCTGGGCTTTGTGATGTATTATCTTTCAGTATAAAGGCTTTGTTTTAAAATGGTGTGGTTTGTACGCAGTATTTCACTTGGACACCAGTTCGTGCCAAGAGCTCAAATTTGAAACGATACTGCTAGAGCCACAACTGATAATTAGTTAAACGAGGTAGCCTATGTGTCTGCTAGAATAATAGCTAGTAAATTAGTCAAAATAGTCTTTTCTAACTGATGGGACTATCACTTAATGAAATGCCACTGAGTTGATCTAACTCTTTAAAATTAAAACTGAAATAATTCTTATTTCTATTCTTATAGTGAGAGAGCTCCTTTGTAGATTTTTATGACTTTGCATACTGGTGGTATGAGTTTCATGTATCTGTTTAGTTGTACATCTGATGTTCTGATAATTACCTCATTGCTTCCCTTATCATTTTTTCAAAATGCAAGAAGTTAACTTTTCTGCAATTCATCTTTAACCTTCTTATTCTGCAAGTTTAGTTGCTGGGTGCTCATATGAGGCTAGAATGAAATTCTAAAGTTGAATCATGTGAGTGTTACATTAAAACAATGAGACCTTATGATATTGAAAATAATTCAGGGCCTTCTCATTTTCTCTTTGCTCGAACAGTACTGTGTAGTTTTGACATGAGCAGTTCCTTCAGGTAATAATGTTTGCGCCCTGTCGTGTCACTTATGTGCTGGTGCAGCCCCTTGCGCCACTCATCTATTTGCAGCAGTTTATGACTTGAGCCATGATTTTTTGTAAGGCATTTGGAACATGCTGCGTGTTGTACTTCAGGATGTTAAAAGCAGCATCTTTTGAAATGTATCAGAGATGATGCAAGTTTTCTTTTTCTATTTTCCCAG
Seq C2 exon
TTTCATACACAAGATGAATACAGCTGAATTCAAAAGCGCAACATTCCCTAACGCAGGACCAAGGCACCTACTGGACGACAGCGTCATGGAGCCTCATGTCCCATCGAGAGGGCAGGCAGAAAGCTCCACCCTTTCTAGTGGAATTTCAATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004273:ENSGALT00000006794:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.783 A=NA C2=0.750
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
CTTCCGAAGTTGGAGCGTCG
R:
ATTGAAATTCCACTAGAAAGGGTG
Band lengths:
286-1167
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]