GgaINT0049052 @ galGal3
Intron Retention
Gene
ENSGALG00000020715 | O42419_CHICK
Description
NA
Coordinates
chr7:20983283-20984143:+
Coord C1 exon
chr7:20983283-20983411
Coord A exon
chr7:20983412-20984051
Coord C2 exon
chr7:20984052-20984143
Length
640 bp
Sequences
Splice sites
5' ss Seq
TGCGTAAGT
5' ss Score
9.73
3' ss Seq
TGTGGAATCCCTCACTACAGATA
3' ss Score
5.48
Exon sequences
Seq C1 exon
GTACACTTTCACTGGAATTTATACTTTTGAATTTCTGGTAAAAATCCTTGCAAGAGGTTTCTGTATAGATGATTTTACTTGCCTTCGTGACCCTTGGAACTGGCTTGATTTTGTTGTCATTTCCTTTGC
Seq A exon
GTAAGTTTGTTTATTTACTTACTTGCAATTTAAATACCAGTTACTGTTCTTTTTGAAACTCTTGTAGCTAGTTTGAGTTATGTTAGCTCATTTAAAACTGATTTGCAGTCAAAATGTATTTCAACTTTTCCCATTTTAGTATGTTACAATGATCTAGCACATTGCAGAATTAATGTACTATCTCACAGTACAAAAGAGAGGTTACCACTGAACAATCTATTTTAAACTCTCAACGATAAAATTGGGGTAATCAGTTTCATTTCAGTTTACATTAAATGTAAATACTTTAAGGTTATGTTTCCTAGGGAAAACTCAATTGAAATAGGAAAATATGACTGTAAGTCTTTCATTTAAAGTTATCCCTTCCTGAAAAGTAATCTGGATTACAGGTTCAGGTAAGTAGTAAACGCTCTACCTTAATTCTGAAAAACTGTAATTTAATCCTACAGGTATATAACAGAATTTGTAAACCTAGGCAATGTTTCAGCTCTTCGAACTTTCAGAGTATTGAGAGCTTTGAAAACTATTTCTGTAATCCCAGGTAAGAAGTAACTGTGTAAAGTATTAGGCTCTCTATATCACCTCTGTTTAATTCTGTGTGTGCTGTCATTGTGTTTGTATGTGGAATCCCTCACTACAG
Seq C2 exon
ATATGTGACAGAGTTTGTGGACCTGGGCAATGTCTCAGCATTGAGAACATTCAGAGTTCTCCGAGCTTTGAAAACAATATCAGTCATTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000020715:ENSGALT00000017930:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(16.8=100)
A:
NA
C2:
PF0052026=Ion_trans=FE(12.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTGAATTTCTGGTAAAAATCCTTGC
R:
TGACTGATATTGTTTTCAAAGCTCGG
Band lengths:
190-830
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]