GgaINT0125614 @ galGal3
Intron Retention
Gene
ENSGALG00000005095 | F1NYW3_CHICK
Description
NA
Coordinates
chr17:5435784-5436786:-
Coord C1 exon
chr17:5436699-5436786
Coord A exon
chr17:5435896-5436698
Coord C2 exon
chr17:5435784-5435895
Length
803 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
ACTAATGGTAATTTTTTTAGCAT
3' ss Score
4.32
Exon sequences
Seq C1 exon
GCCGTATCGATGCCCAGGAGATTGTACAGTCTCTTCGGGACCTGGGAGTTAAGATCTCTGAACAGCAGGCTGAAAAAATACTGAAGAG
Seq A exon
GTGAGGGTTCAGCTGGTTGTTGTGTCTTACTGAAAAGACCTTCAAATTGAGAGAAGGAAGTGTGGGGCCATGGAACCTTTCTCCTCTCTCCTACCTTGTATCCACTTCCCGGAGACTTCAGCTCCTCCCTTTTGCCTGTTACTCTTCATTTTGATTTTTCCAATTAAATAACACTTTCAATGCTGTAATTCGTTGTGGAGAGTTGCTGTAAGAATGTCTTGCCTTGCTGGCCTTTTGTGGGGAAGGGCTTGCACCTGAGCCGGTGGCATTTGTTCCTGTCTGACTGTCCTGCTGCCTTGAACTTGCTGCTTTGAAGAGGGAATGTGCAGTTGCCCTTTGGAAATGCTGAGTGCGTTTTGCATGTGGCACTAACATGTTAACAACCACTTATTTGTGCTGTTTTTTTCCTCTTTCTTTCCTCTGCAACCCTCCCTCTGTCTGTTTGCCTGTGTGTCAGAATAAGGACGGGACACTTCTGGGGTCCTGTCACCTAGTAAGTATGTTTTTCCCTTCAGTTGGGAAACTAGATGGACTAACTTTGATAGGAGGGGGTACAGCAACTCCTGTGGTGCAGGTAAAGGGGAAATAAAGGAGAGAAAGAAGGAGACCATGTCTATCTCTCTGCAGTATTTGGTGTGGAGAAGATCTCTTGGCTTTGTCTTGTGTCTCTTTGGAAGTCTTTCAGTAGTTGCTTTGCAAAGCTTTTTTTTTTTTTTTGGTGTAGGTCTGAATAAGCAGAGGGAAGGGGAGGAGAAATTTGTCACCCAGTGGGAGTCTGTACTCACTAATGGTAATTTTTTTAG
Seq C2 exon
CATGGATAAAAATGGGACGATGACAATTGACTGGAACGAGTGGCGAGACTATCACCTGCTGCACCCAGTGGAGAACATTCCTGAGATCATCCTGTACTGGAAGCACTCCACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005095:ENSGALT00000008172:3
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:
PF134991=EF-hand_7=FE(46.8=100)
A:
NA
C2:
PF134991=EF-hand_7=PD(27.4=44.7)
Main Inclusion Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGTATCGATGCCCAGGAGAT
R:
GGAGTGCTTCCAGTACAGGATG
Band lengths:
196-999
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]