GgaINT0124778 @ galGal3
Intron Retention
Gene
ENSGALG00000000853 | F1NDA6_CHICK
Description
NA
Coordinates
chr17:11118780-11119705:+
Coord C1 exon
chr17:11118780-11118991
Coord A exon
chr17:11118992-11119561
Coord C2 exon
chr17:11119562-11119705
Length
570 bp
Sequences
Splice sites
5' ss Seq
GAGGTGATG
5' ss Score
4.44
3' ss Seq
TGCATCATCTTTTTTAATAGGGA
3' ss Score
7.92
Exon sequences
Seq C1 exon
GATTGACACTAAAATGGCACTGGCTGGCAGTATTATGTTCTTTTCCACCATGCGTAATGCTTTTGTTTATGTTGTTCATGCCTGAAACACCGAGATTTCTGCTGGATCAGAAGAAACGTGCAGAAGCTATAGCTGCTTTACAGTTTCTGCGAGGACCATACGTGGACCATGAATGGGAATGCAGGCAAATTGAAGCTAATGTTGAGGAGGAG
Seq A exon
GTGATGAGAATCTGATTTGCACTAAAGACAATAAGTCTGAAAGTATGCAGTGTAATTAAAGGGTTTTTATAGTAGCTTAGTTAATAGCCTTTTCCATGGTGATCCAAACCTATTTCCTCACAAATGAACTTAAGAAGCAGTGAGATTCAAATAATCTTTTTTCTTCTGCCTTCCAGATGCAACTGCTATCAGTGTTGGCTGTCACTGGTATGCATGAGTAGCAGTTGGGCTGATGATCTTACTGTGACGATAGATGTGTAGTAATTGAAGTTTTATTTCTGTAAATTACTGATTCTTTCATGTTAACTTTCTCTGCAAAGTACCATCGATTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGTCTCTAGAACCTGAGGAAAGGCTAAAAATATTTTCCTGTAGTTCTCATCCTTCAAATGTAAACACTTACTACTAAGAAGTTTAATTTTGTTGAAGAGGGGTGAAAAACTCTTTGAATATACTGAAATGTTCTGAGGATTTTTATTTTTTGTTGATTTAAAATACTATTTTTTTCATGGAACCATTGCATCATCTTTTTTAATAG
Seq C2 exon
GGACTAAGCCTCTTTGAATTTAAGAATCCTTCAATCTACAGGCCACTTCTTATTGGTGTGATTCTGATGTTTCTCCAGCAAGTAACAGGCATTAATGCAGTTATGTTTTATGCAGAAACAATCTTTGAAGATGCAAACTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000853:ENSGALT00000001251:5
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:
PF0008319=Sugar_tr=FE(15.5=100)
A:
NA
C2:
PF0008319=Sugar_tr=FE(10.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTAAAATGGCACTGGCTGGC
R:
CTGGAAGTTTGCATCTTCAAAGA
Band lengths:
349-919
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]