GgaINT0139189 @ galGal3
Intron Retention
Gene
ENSGALG00000001331 | F1NLW7_CHICK
Description
NA
Coordinates
chr24:1607973-1609126:+
Coord C1 exon
chr24:1607973-1608109
Coord A exon
chr24:1608110-1608673
Coord C2 exon
chr24:1608674-1609126
Length
564 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
TATGGTTTGTTTTTGTGCAGGGA
3' ss Score
8.18
Exon sequences
Seq C1 exon
GCAGCGGATCCACCATCTTGCAGAAAGCAGAAATCCGGGTGATCAACCAAACCGTCTGCAACCGGCTGCTGACCGACCAGCTGACAGAGCGCATGATGTGCGTGGGGGTCCTGACGGGCGGCGTGGATGCGTGCCAG
Seq A exon
GTGGGTGAGAGCTCTGCTTTATTGCTGTAAGCAGGAACCTTCGTTAGCAAGACTGGCGCCCTTCGCTCAGCACTTTTTATTCCGGCACATGGACTCGCATTTCCACACTTAATAATATGCTGTGCATCTATGTGGATCCTTCTGGGTTCACATGGACAAACCGGAATGCATGGCAGCAGCAAATTGTGTTTATTGATGCATGCTCGAGTCTTATAAACGGATCATCAGTGCAGCTGTGCTCTGCCTGCTCCCTGTTGTTGAGAGCCTCAGGAAGACAGGCCATTTGTTTAGATTTGTTTGGCTGTTTTTACTCTGGCATTTTGACTGCTTTTGCCACACTTGGCTTTTCTTGATTCGGGGACTGGTTTTGTAAATTGGATTGAGCAGGAAATTGTAGGACCTTGTTTCCGAGATTAACTGTTCATTGGTTTTTCCAGGATTCCCTTCAGTTAGTTAATGATTATGAAATAATTAGTTAATTAAATTATTTCATTCCAATTTTGAGATGTACTTAAAAACTTTTTTAACGGTTCTGTATTTATGGTATGGTTTGTTTTTGTGCAG
Seq C2 exon
GGAGACTCCGGAGGGCCCCTGGTCAGCGTGGAGAACAGCGGGCGGATGTTCCTGGCTGGCGTTGTGAGCTGGGGAGATGGCTGTGCACAGAGAAACAAACCTGGAGTCTACAGCCGGCTGACAGCACTGCGGACGTGGATCAAGCAGCAGACAGGACTCTAGGGATGTGCTCAACCCTCAGACACAACCAACTCCTGCACAGCACCAGGTGGGGACAACGCGGACTGTGAGGCACTGCCCCAGGAGCTGCCACCATTGTGAGCCTCTACCTCACTGCCTCTGGGACTCCCAACCCTGGGCTGCTGGGTGAGCACAGCCCTTAGTACTTCATCCTCCCAAACCCACATCAACTTACGAATTCCTTACATCCACACATTGATTTCCTCTCTTCTGGGTAAGCAAATGGAGCTCCTGCAACAAACTTGAATGAACAGTCATTCAACAGAGAATATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001331:ENSGALT00000002027:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(19.1=100)
A:
NA
C2:
PF0008921=Trypsin=PD(19.6=85.2)
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:
GCTGACAGAGCGCATGATGT
R:
CCCAGAGGCAGTGAGGTAGAG
Band lengths:
342-906
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]