GgaINT0125712 @ galGal3
Intron Retention
Gene
ENSGALG00000001037 | SCAI
Description
NA
Coordinates
chr17:10276258-10277666:+
Coord C1 exon
chr17:10276258-10276330
Coord A exon
chr17:10276331-10277492
Coord C2 exon
chr17:10277493-10277666
Length
1162 bp
Sequences
Splice sites
5' ss Seq
AGGGTATGT
5' ss Score
8.34
3' ss Seq
CTTTGTCTATTGATTTTTAGATC
3' ss Score
9.87
Exon sequences
Seq C1 exon
AATTTCACAAACTTATTTGGACAACCATTGGTGTGCTTGCTTTCTCCAACAGCATATCCAAAAGCGTTACAGG
Seq A exon
GTATGTATAGTATGGTATTATCTAGCACAGTGCTGGGATTCTTGTTATTTTATTTTTATTATTGTTGTTATTATTAGCACTTGGTATAGATTTATTAGTACCCAAAGGTCAGCAGAATGCATTTAGGTGTCAGCTTTTAAATGCCGAATCTGGAGTAAAATCCTCTCAGATCTGGTTCTAATTTGGAGGGTAACTTTAGGAAAACTTGGATTTGCATTGTCTGAGAAGGTGGGTCCATAGCAGGAACAGGCAAAGAAACATCACTTTTCTGTCTTTGTGATTATGATAAAGTAATAACTATTCTTCTACAGGAAAGAAGGGGACAGACTCTTCAGCAGGGTCTGAGGTGATAGAACAAGTAGAAATGGTTTCAAGCTCAAAGAGGTTAGATATAAGGAAAAGATCTTTTACAGTGAGGGTGGTAAGGCACTGGAACAGGTTGCCCAGTGATGTGGTGGATGCTTCGTCCCTGGAGACTTTAAAGGTGAGGCTGGATAAGGCCCTGAGCAACCTGATCTAGCTGTGGTGTCCCTGTTTATTGCAGGGGAGTCGGACTAGATGGCCTTCAGAGGTTCCTTCTAACTCTAAGCATTCTATGATTCTATTCAAAATTTCCTTATTGGAATTTGCCATATTAAGGTTACTGTTCATCACAAAGACAAGTATAAAGATCTAGCTTAAGCCGTGTAGAGAAGTGTTATGCAAGCATCATGAGCAAATGTGCAAGAAGGAGACACTTTTCATTAGTTTGAGAACTAGTCCTGCTAATTACCTGAAACTTAAGTAGAAAGTAAGTGCTGTAATAATTAATCCAATTTAAACAGAGACTCTAAAAAATAAAGCTGAACTCTTTATCAAATACTGGATGCTTGTGTGACATTCACTGATGAGTCGGGAATGTCTTGCTGTAGTTGTGAGGGTGTAGTACAGTGTGCACTGGAGTACAGTACAGAGGCTGGCACTGGGGCTCAGTTAGGGTCTGTTAAGATGTCTCTGCACTGTGCTCATGTGCATTACCTTGAACAGATAGGCCACAGAAGTATGTACAACTAACACAAACTCTGCTGTTAGAGATTTTAGTGGGTGAGCAGCTTCATTCTGAGGCAAGGACAACTTTTCTGTTTCATCTGCCAAATGTATCTCTTTGTCTATTGATTTTTAG
Seq C2 exon
ATCAGTCTCAGCGGGGTAGCCTCTTCACACTCTTTCTGAACAATCCTTTAATGGCATTCCTATTTGTCTCTGGATTATCAAGCATGCGCAGAGGACTGTGGGAGAAGTGTCAAGATTACCTCAGAAAAATCAATCGAGATATTGCGCAGCTGCTGACCCACTCCCGCTCCATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001037:ENSGALT00000001535:13
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:
PF120703=DUF3550=FE(5.1=100)
A:
NA
C2:
PF120703=DUF3550=FE(12.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACTTATTTGGACAACCATTGGTGTG
R:
CTATGGAGCGGGAGTGGGTC
Band lengths:
238-1400
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]