GgaINT0144388 @ galGal3
Intron Retention
Gene
ENSGALG00000000458 | F1NP62_CHICK
Description
NA
Coordinates
chr28:607341-608431:+
Coord C1 exon
chr28:607341-607627
Coord A exon
chr28:607628-608294
Coord C2 exon
chr28:608295-608431
Length
667 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGC
5' ss Score
9.26
3' ss Seq
ATCCCATGGTCTTCACACAGTCA
3' ss Score
5.51
Exon sequences
Seq C1 exon
ACTGTGCATTTACAGGACAAATCCGGAAGAGATTGAAGCCTACATGGGAACGACATCACTAAATGGAACAGATGGGAGCGCAGTGAAAGTCAATGTAACACGAGTGATCCCGCATCCTCTCTTCAACCCCATGCTTCTGGACTTTGATGTAGCTGTACTTGAGCTGGCAAGACCCCTCGTCTTCAACAAATACATCCAGCCCATCTGCCTCCCTCTCGCTGTGCAGAAGTTTCCTGTTGGCAAGAAATGCATAATTTCTGGGTGGGGAAACCTCCAAGAAGGGAATG
Seq A exon
GTAAGCAGTGATGTGTTATCAGTTGATTTGCTCTGGAACAGAGACAGATTAAGCAGCAAAGCCTGTGTGGCTGTGTGACCCTATGTGAATACAGGGTAGGGGAGGTCAGGACGAAATAGAAACAGGAGTAAGCAAGAAACGGGGCACACCTTAAACTGCAGTTATTTGGGAGCCACAAGCAAACAAGGTAAGGGAGATAGCAGCTTGGCAGGAGCCAGGAGAGCCCATCTGGCTCCCCTCAATGGTTCTCCCGTATTAAGCAAGAGTGGGACACTGCCTTGGCAGCACTTCATGCACTGTGCTCATTGATGAGGCTCAGTCGAAATGATGTTCTGAGTAATGAGAAAGAGCAAGGAACCCAATTCAGGGGGAAAGCCCGTGGGGGCTATGTGTGTTAGCAGAGAAGCTCTGCTGTCTCTCTACCAGTTGGGAAGGAGCCCACCAGCTGCCAAGACAACAGAAAATGGCTGCCTGTGCCCAGTGGCCTTTATCCAACCCAAAACTGCACCCTGGGGTGAGCCGGAACTTCAAGGGCTTCCAATAGGAGGGCAGTTCATGCGGGATGCAGCTGCTGTCTGGGACCAGAGCTTGCTTTTCTGTAGTGTGTGCTAGAGCAGCCATAGCTCTTGCTTCCCTCTGCTGCACTAATCCCATGGTCTTCACACAG
Seq C2 exon
TCACCATGTCTGAGAGCCTGCAGAAAGCCTCTGTGGGCATCATAGATCAGAAGACCTGCAACTTCCTCTACAACTTCTCCCTCACTGAGCGGATGATCTGCGCTGGTTTCCTGGAGGGGAAGATTGACTCATGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000458:ENSGALT00000000620:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.041 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(42.1=100)
A:
NA
C2:
PF0008921=Trypsin=FE(19.7=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:
CAGATGGGAGCGCAGTGAAAG
R:
TCTTCCCCTCCAGGAAACCAG
Band lengths:
342-1009
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]