GgaINT0039168 @ galGal3
Intron Retention
Gene
ENSGALG00000008939 | FUBP1
Description
NA
Coordinates
chr8:19611255-19612139:+
Coord C1 exon
chr8:19611255-19611400
Coord A exon
chr8:19611401-19611781
Coord C2 exon
chr8:19611782-19612139
Length
381 bp
Sequences
Splice sites
5' ss Seq
CAGGTATAA
5' ss Score
7.46
3' ss Seq
TATGTATCTCTTCTGCACAGGGC
3' ss Score
8.31
Exon sequences
Seq C1 exon
GTCAAGCAGTTCCTGCACCTGCTGGAGCTCCGCCAGGTGGTCAGCCGGATTACAGCGCAGCATGGGCTGAGTACTACAGGCAGCAGGCAGCATACTATGCCCAGACAAGTCCCCAGGGAATGCCGCAACATCCTCCAGCACCACAG
Seq A exon
GTATAAACTTCCTTCAGTGTGTTTTCTGGCTGGCTTCTGTTTCAGTGGTTATAGATATTTTTTTGCATGTCTCCTGCTTTGTTACCTTTGGAGTATGCATCTTTTTTTTTTCCCTAGCACAATAACTATTATCAAAATAATTAATAGAAGACGTTTACATGATAACTTGATTTCTGTATCTATCTGTGTGTTCGGTGATTTTAATTTTTTTTTAAAAAAGAAAAAAACTTTCTCCTCCCAGGGTTTTGAAAACCATGCAAGAAGCCACCACCATTTACATTAACCAATTTTTCTTTCTTAAAGGCTTCACTCCTGAGTTAGCTCGATTTAAAGGATTTTCTTTAACTTGTTGTGTATCTCTTATGTATCTCTTCTGCACAG
Seq C2 exon
GGCCAATAATAAGAAGTGGACAATACAGTATTTGCTTCATTGTGTGGGGGAAAATACCTTTGTTAAATGTATGGATGCAGACGCCTTGATGAAGATCTTAATTTTGTTTGGTTTAAAAAAAAAAAAATAGTGTTTTTGAAAATGTACAAAATATCTATCACTACTGATAGGAGGTAATATTTCTGTGTAGAAATGAAAAATGGTTTGTTTTTAGTATTAGTGTAGATGTACACATTCCAGCAAATGTATTTGCAATTATGTGGTCAATGCTTTGTGATATAAATGTACTTTTTCAATGTATTCTTTATCACTTTTAAAATGCCTGTTTTGTGCTTTACAATAAATAATATGAAACCTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008939:ENSGALT00000014525:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.796 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF090055=DUF1897=PD(20.7=12.2),PF090055=DUF1897=WD(100=67.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGAGTACTACAGGCAGCAG
R:
ACAAAGCATTGACCACATAATTGCA
Band lengths:
356-737
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]