GgaINT0081287 @ galGal3
Intron Retention
Gene
ENSGALG00000013635 | SCAF8
Description
NA
Coordinates
chr3:52231814-52233728:+
Coord C1 exon
chr3:52231814-52231970
Coord A exon
chr3:52231971-52233597
Coord C2 exon
chr3:52233598-52233728
Length
1627 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAA
5' ss Score
8.59
3' ss Seq
CTGGATTTCCTTTCTTTTAGGAA
3' ss Score
10.04
Exon sequences
Seq C1 exon
AGTAAAATTGTTAGAGTGCTAAACTTATGGCAGAAGAATAACGTGTTCAAGAGTGAAATTATTCAGCCTCTCTTGGATATGGCAGCAGGAATTCCTCCGCCAGTTGTGACCCCCGTCTTGCCCAGCACTGCTGCTGCTATGAGCAACAATACACCAG
Seq A exon
GTAAAAATAAAACCAGATGATAATTGAATAAATCACATTCTATCGAAACCCTTCTGTCAGCTTTGGTTCCTTGGCTGTTAATGTGCTGAAAAAAAAAACACCTCAGTGGTTCCCTTTTGATAAATCCAATGAAATCCAGAAAGGAATGTATTGTAGCCAGCATTCATATTAGGAAAATAGCAAAAACAAAACAAAGCCCATTATGTTTACTTTCCAACTATGTATCTTAAATAATTTCATATTGAGTAACAGTGTGGTAAGACCTCCTTTTGCATGTTAAAGGCAAAAAAGAAGATACTTGATCGTTGAAAAGAGAACTCATCAGTATCTTTTTGCTATCTTTAGTACTGAACATGTTGATTAAATAATGTCAGACTGTGATCATTTACTTTTGCTGGTTAATAGGCAGTGATTTTGAGCAGAAAACTCCACATTGATAAAACAAGCTGCATCTACTAACATACCTCCTCCTCACCATAGTTTAGAGTCAGAAACAAGTGGGCAAAAAGCTGCTCATGGAGTACATCTGAAGCTCCTTAACACTAACATTTTTATATATGCCTTAATGGTCTTAATGCTAGTAGATGCTAGGAAGCTGGCTTTTCAACAATTCTCATTTTGTGCAGACTTTTTCCTTGACGATTGGAATGTATGGGAAATTTTATTTATAAAATTATTTTTAGCACATCTGGACATGATTTTGTTACTCTCCTTTTGCTGATCCTTTGCTGAAAATCAGGCAGGTAGAAAATCTTATTTTTGAGCAGTGTCTATAAATATGCAGAAGTTCCTATTCTGCGACATACCGCATCTTCTACCTCAATGTTTTTTTATTTTCATTAGTTTGATTACTTTAAAATGTTGAAATCACAGCTTTGCTCTAATGCCTTTTTTTGAATTTTGATGCAGATTTCCTGTTTAAGTGGTAATCCACTCTGTTTTCACTTGATATTCATCAGCATATCTCTATTTTCAAGCTAAAAGTAAGAAATATTAGGAAGAAAGAAAAAAAAGCATGACTAGCTGGGCAATCTTAAATAATCCAATTGCTGCAGGCTGGAATTTTAGTAGAAACCTCAAGGTTCCTTCTGAGTATAAAGTGTAAGCCCAGTACATTTTGAACTAACTGATATTTCTGAATGGATTACTATTGCCATTTGGTAGATATTGCTTCCACTGGGTGGTTTAGGTTACTGTGTGAAACCTATTTAGATTCCTTGACCTTCTTGTATTTTACATTCATTCAGTGCTATTGTTAGTAGTTCCCATAGGGCAGTAGTGGAATGAGCTGTGAATTGCACTTACACAGCAGAGCTGCTACTTGAAAAACGATGATGTGACTGTTTTATTTCTTTGTGCTCTGTATGTGTGTCAGAAAAATAGTTTTTGTTCATGTTAATGAAGTGTTTCCCAGTTCTTAATAGCTGGTTTTGATGTCCTAGGGAGATTGGAGTTGCTTTATAATTTGGTTTCTTGCAGTCCAGAAGTCATTGCTCTAAAAAATAAACAAGAGAATATTCATGTTTGATTTATCGTTTCTTTTTCAGCAGTTTTCCCCTCTCCCCCAGCACTATTTCTAAGTCTGTATGCTAAAATATTTTGACATGCTGGATTTCCTTTCTTTTAG
Seq C2 exon
GAACACCTGTGACTCCAGTTACTCCTGCCAATGTGGTGCAAAGTTTACCTGATCCTTGGGTGTCTCAGATTGCTAATACAGATACGCTTGCTGCTGTAGCCCAGATTTTACAGAGTCCCCAAGGCCAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013635:ENSGALT00000022182:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.245 A=NA C2=0.386
Domain overlap (PFAM):
C1:
PF048188=CTD_bind=PD(24.2=30.2)
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:
TTGTTAGAGTGCTAAACTTATGGCA
R:
TTGGCCTTGGGGACTCTGTAA
Band lengths:
278-1905
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]